Atomistry » Sodium » PDB 5txq-5u4u » 5ty2
Atomistry »
  Sodium »
    PDB 5txq-5u4u »
      5ty2 »

Sodium in PDB 5ty2: Crystal Structure of S. Aureus Penicillin Binding Protein 4 (PBP4) Mutant (E183A, F241R) in Complex with Nafcillin

Protein crystallography data

The structure of Crystal Structure of S. Aureus Penicillin Binding Protein 4 (PBP4) Mutant (E183A, F241R) in Complex with Nafcillin, PDB code: 5ty2 was solved by J.A.N.Alexander, N.C.J.Strynadka, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 46.12 / 1.70
Space group C 1 2 1
Cell size a, b, c (Å), α, β, γ (°) 113.850, 92.244, 78.952, 90.00, 98.43, 90.00
R / Rfree (%) 16.9 / 20.5

Other elements in 5ty2:

The structure of Crystal Structure of S. Aureus Penicillin Binding Protein 4 (PBP4) Mutant (E183A, F241R) in Complex with Nafcillin also contains other interesting chemical elements:

Chlorine (Cl) 2 atoms
Zinc (Zn) 4 atoms

Sodium Binding Sites:

The binding sites of Sodium atom in the Crystal Structure of S. Aureus Penicillin Binding Protein 4 (PBP4) Mutant (E183A, F241R) in Complex with Nafcillin (pdb code 5ty2). 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 Crystal Structure of S. Aureus Penicillin Binding Protein 4 (PBP4) Mutant (E183A, F241R) in Complex with Nafcillin, PDB code: 5ty2:

Sodium binding site 1 out of 1 in 5ty2

Go back to Sodium Binding Sites List in 5ty2
Sodium binding site 1 out of 1 in the Crystal Structure of S. Aureus Penicillin Binding Protein 4 (PBP4) Mutant (E183A, F241R) in Complex with Nafcillin


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Crystal Structure of S. Aureus Penicillin Binding Protein 4 (PBP4) Mutant (E183A, F241R) in Complex with Nafcillin within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Na404

b:34.7
occ:1.00
OD2 B:ASP364 2.1 32.0 1.0
O B:HOH758 2.2 28.9 1.0
O B:HOH722 2.4 34.8 1.0
CG B:ASP364 3.0 31.3 1.0
NZ B:LYS353 3.2 81.0 1.0
OD1 B:ASP364 3.3 28.6 1.0
O B:HOH696 3.7 41.0 1.0
CA B:TYR365 4.3 22.4 1.0
CB B:ASP364 4.3 23.3 1.0
N B:TYR365 4.4 22.5 1.0
C B:ASP364 4.4 24.1 1.0
O B:ASP364 4.5 23.9 1.0
C B:TYR365 4.6 22.1 1.0
CE B:LYS353 4.7 70.2 1.0
N B:PRO366 4.9 21.7 1.0
CD B:PRO366 4.9 24.5 1.0
CA B:ASP364 5.0 20.8 1.0

Reference:

J.A.N.Alexander, S.S.Chatterjee, S.M.Hamilton, L.D.Eltis, H.F.Chambers, N.C.J.Strynadka. Structural and Kinetic Analysis of Penicillin-Binding Protein 4 (PBP4)-Mediated Antibiotic Resistance Instaphylococcus Aureus. J. Biol. Chem. 2018.
ISSN: ESSN 1083-351X
PubMed: 30366985
DOI: 10.1074/JBC.RA118.004952
Page generated: Tue Dec 15 11:39:12 2020

Last articles

Zn in 7VD8
Zn in 7V1R
Zn in 7V1Q
Zn in 7VPF
Zn in 7T85
Zn in 7T5F
Zn in 7NF9
Zn in 7M4M
Zn in 7M4O
Zn in 7M4N
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy