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Sodium in PDB 2pqk: X-Ray Crystal Structure of Human Mcl-1 in Complex with Bim BH3

Protein crystallography data

The structure of X-Ray Crystal Structure of Human Mcl-1 in Complex with Bim BH3, PDB code: 2pqk was solved by E.Bare, R.A.Grant, A.E.Keating, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 34.60 / 2.00
Space group I 2 2 2
Cell size a, b, c (Å), α, β, γ (°) 53.087, 71.846, 118.145, 90.00, 90.00, 90.00
R / Rfree (%) 19.4 / 22.9

Other elements in 2pqk:

The structure of X-Ray Crystal Structure of Human Mcl-1 in Complex with Bim BH3 also contains other interesting chemical elements:

Zinc (Zn) 3 atoms

Sodium Binding Sites:

The binding sites of Sodium atom in the X-Ray Crystal Structure of Human Mcl-1 in Complex with Bim BH3 (pdb code 2pqk). 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 X-Ray Crystal Structure of Human Mcl-1 in Complex with Bim BH3, PDB code: 2pqk:

Sodium binding site 1 out of 1 in 2pqk

Go back to Sodium Binding Sites List in 2pqk
Sodium binding site 1 out of 1 in the X-Ray Crystal Structure of Human Mcl-1 in Complex with Bim BH3


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of X-Ray Crystal Structure of Human Mcl-1 in Complex with Bim BH3 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na404

b:36.6
occ:1.00
OD1 A:ASP241 2.3 40.8 1.0
OD2 A:ASP241 2.4 39.7 1.0
CG A:ASP241 2.6 40.4 1.0
OE2 A:GLU240 2.8 48.5 1.0
CD A:GLU240 3.7 46.5 1.0
CG A:GLU240 4.1 43.3 1.0
CB A:ASP241 4.2 40.5 1.0
OE1 A:GLU240 4.6 47.3 1.0
CG A:PRO289 4.9 38.2 1.0
CA A:ASP241 4.9 40.6 1.0
N A:ASP241 4.9 40.4 1.0

Reference:

E.Fire, S.V.Gulla, R.A.Grant, A.E.Keating. Mcl-1-Bim Complexes Accommodate Surprising Point Mutations Via Minor Structural Changes. Protein Sci. V. 19 507 2010.
ISSN: ISSN 0961-8368
PubMed: 20066663
DOI: 10.1002/PRO.329
Page generated: Tue Dec 15 05:54:09 2020

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