Atomistry » Zinc » PDB 5tte-5u0e » 5tx9
Atomistry »
  Zinc »
    PDB 5tte-5u0e »
      5tx9 »

Zinc in PDB 5tx9: Crystal Structure of S. Aureus Penicillin Binding Protein 4 (PBP4) Mutant (E183A, F241R) in Complex with Ceftobiprole

Protein crystallography data

The structure of Crystal Structure of S. Aureus Penicillin Binding Protein 4 (PBP4) Mutant (E183A, F241R) in Complex with Ceftobiprole, PDB code: 5tx9 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) 32.84 / 1.68
Space group C 1 2 1
Cell size a, b, c (Å), α, β, γ (°) 116.882, 92.252, 79.381, 90.00, 100.22, 90.00
R / Rfree (%) 20.8 / 24.1

Other elements in 5tx9:

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

Sodium (Na) 4 atoms

Zinc Binding Sites:

The binding sites of Zinc atom in the Crystal Structure of S. Aureus Penicillin Binding Protein 4 (PBP4) Mutant (E183A, F241R) in Complex with Ceftobiprole (pdb code 5tx9). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 4 binding sites of Zinc where determined in the Crystal Structure of S. Aureus Penicillin Binding Protein 4 (PBP4) Mutant (E183A, F241R) in Complex with Ceftobiprole, PDB code: 5tx9:
Jump to Zinc binding site number: 1; 2; 3; 4;

Zinc binding site 1 out of 4 in 5tx9

Go back to Zinc Binding Sites List in 5tx9
Zinc binding site 1 out of 4 in the Crystal Structure of S. Aureus Penicillin Binding Protein 4 (PBP4) Mutant (E183A, F241R) in Complex with Ceftobiprole


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Crystal Structure of S. Aureus Penicillin Binding Protein 4 (PBP4) Mutant (E183A, F241R) in Complex with Ceftobiprole within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn401

b:38.5
occ:1.00
NE2 A:HIS382 2.1 51.2 1.0
OE2 A:GLU336 2.2 41.0 1.0
CE1 A:HIS382 2.6 49.5 1.0
CD A:GLU336 3.1 38.0 1.0
CD1 A:TYR334 3.3 67.8 1.0
CD2 A:HIS382 3.4 47.4 1.0
OE1 A:GLU336 3.5 41.6 1.0
CE1 A:TYR334 3.9 70.1 1.0
ND1 A:HIS382 3.9 48.2 1.0
CG A:TYR334 3.9 64.8 1.0
CB A:TYR334 4.2 52.7 1.0
CG A:HIS382 4.2 47.2 1.0
CG A:GLU336 4.4 29.6 1.0
CZ A:TYR334 4.8 73.0 1.0
CD2 A:TYR334 4.8 71.2 1.0

Zinc binding site 2 out of 4 in 5tx9

Go back to Zinc Binding Sites List in 5tx9
Zinc binding site 2 out of 4 in the Crystal Structure of S. Aureus Penicillin Binding Protein 4 (PBP4) Mutant (E183A, F241R) in Complex with Ceftobiprole


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Crystal Structure of S. Aureus Penicillin Binding Protein 4 (PBP4) Mutant (E183A, F241R) in Complex with Ceftobiprole within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn402

b:16.6
occ:0.38
OE2 A:GLU357 2.0 23.6 1.0
CD A:GLU357 2.9 21.2 1.0
OE1 A:GLU357 3.2 23.7 1.0
O A:HOH790 3.3 21.5 1.0
CE1 A:HIS362 3.8 16.3 1.0
NE2 A:HIS362 4.2 14.3 1.0
CG A:GLU357 4.3 20.7 1.0
O A:HOH724 4.3 26.1 1.0
ND1 A:HIS362 4.8 15.4 1.0
O A:HOH810 4.9 35.9 1.0

Zinc binding site 3 out of 4 in 5tx9

Go back to Zinc Binding Sites List in 5tx9
Zinc binding site 3 out of 4 in the Crystal Structure of S. Aureus Penicillin Binding Protein 4 (PBP4) Mutant (E183A, F241R) in Complex with Ceftobiprole


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Crystal Structure of S. Aureus Penicillin Binding Protein 4 (PBP4) Mutant (E183A, F241R) in Complex with Ceftobiprole within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn401

b:86.3
occ:1.00
OE2 B:GLU336 2.6 51.9 1.0
CE1 B:HIS382 2.9 61.6 1.0
CD B:GLU336 3.2 49.7 1.0
OE1 B:GLU380 3.5 49.9 1.0
NE2 B:HIS382 3.6 63.0 1.0
OE1 B:GLU336 3.7 50.2 1.0
CG B:GLU336 3.9 44.1 1.0
ND1 B:HIS382 4.0 60.3 1.0
CD B:GLU380 4.6 44.4 1.0
CB B:GLU336 4.8 35.9 1.0
CB B:GLU380 4.9 27.8 1.0
CD2 B:HIS382 4.9 62.1 1.0

Zinc binding site 4 out of 4 in 5tx9

Go back to Zinc Binding Sites List in 5tx9
Zinc binding site 4 out of 4 in the Crystal Structure of S. Aureus Penicillin Binding Protein 4 (PBP4) Mutant (E183A, F241R) in Complex with Ceftobiprole


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Crystal Structure of S. Aureus Penicillin Binding Protein 4 (PBP4) Mutant (E183A, F241R) in Complex with Ceftobiprole within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn402

b:23.9
occ:0.36
OE2 B:GLU357 1.9 24.3 1.0
CD B:GLU357 2.7 20.0 1.0
OE1 B:GLU357 2.8 20.2 1.0
O B:HOH800 3.1 21.1 1.0
CE1 B:HIS362 4.1 15.4 1.0
CG B:GLU357 4.1 23.1 1.0
O B:HOH685 4.3 24.0 1.0
O B:HOH811 4.5 26.3 1.0
NE2 B:HIS362 4.6 15.5 1.0
ND1 B:HIS362 5.0 15.1 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: Mon Oct 28 08:57:25 2024

Last articles

Fe in 2YXO
Fe in 2YRS
Fe in 2YXC
Fe in 2YNM
Fe in 2YVJ
Fe in 2YP1
Fe in 2YU2
Fe in 2YU1
Fe in 2YQB
Fe in 2YOO
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy