Atomistry » Sodium » PDB 4lh6-4lzw » 4ls8
Atomistry »
  Sodium »
    PDB 4lh6-4lzw »
      4ls8 »

Sodium in PDB 4ls8: Crystal Structure of Bacillus Subtilis Beta-Ketoacyl-Acp Synthase II (Fabf) in A Covalent Complex with Cerulenin

Enzymatic activity of Crystal Structure of Bacillus Subtilis Beta-Ketoacyl-Acp Synthase II (Fabf) in A Covalent Complex with Cerulenin

All present enzymatic activity of Crystal Structure of Bacillus Subtilis Beta-Ketoacyl-Acp Synthase II (Fabf) in A Covalent Complex with Cerulenin:
2.3.1.179;

Protein crystallography data

The structure of Crystal Structure of Bacillus Subtilis Beta-Ketoacyl-Acp Synthase II (Fabf) in A Covalent Complex with Cerulenin, PDB code: 4ls8 was solved by F.Trajtenberg, N.Larrieux, A.Buschiazzo, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 29.11 / 2.10
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 86.440, 87.560, 116.440, 90.00, 90.00, 90.00
R / Rfree (%) 16.2 / 18.6

Other elements in 4ls8:

The structure of Crystal Structure of Bacillus Subtilis Beta-Ketoacyl-Acp Synthase II (Fabf) in A Covalent Complex with Cerulenin also contains other interesting chemical elements:

Chlorine (Cl) 1 atom

Sodium Binding Sites:

The binding sites of Sodium atom in the Crystal Structure of Bacillus Subtilis Beta-Ketoacyl-Acp Synthase II (Fabf) in A Covalent Complex with Cerulenin (pdb code 4ls8). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 3 binding sites of Sodium where determined in the Crystal Structure of Bacillus Subtilis Beta-Ketoacyl-Acp Synthase II (Fabf) in A Covalent Complex with Cerulenin, PDB code: 4ls8:
Jump to Sodium binding site number: 1; 2; 3;

Sodium binding site 1 out of 3 in 4ls8

Go back to Sodium Binding Sites List in 4ls8
Sodium binding site 1 out of 3 in the Crystal Structure of Bacillus Subtilis Beta-Ketoacyl-Acp Synthase II (Fabf) in A Covalent Complex with Cerulenin


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 Bacillus Subtilis Beta-Ketoacyl-Acp Synthase II (Fabf) in A Covalent Complex with Cerulenin within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na502

b:35.6
occ:1.00
 OE1 A:GLU233 2.6 25.8 1.0
O A:HOH611 2.8 24.7 1.0
N A:LEU195 3.0 27.3 1.0
C A:ALA193 3.0 30.7 1.0
CA A:ALA193 3.1 26.2 1.0
N A:PRO194 3.3 25.4 1.0
CB A:LEU195 3.3 26.9 1.0
CG A:LEU195 3.4 29.4 1.0
NH1 A:ARG40 3.4 26.5 1.0
CB A:ALA193 3.5 26.4 1.0
CB A:GLU233 3.6 21.3 1.0
O A:ALA193 3.6 32.6 1.0
CD A:GLU233 3.6 34.0 1.0
CD A:PRO194 3.6 25.8 1.0
CA A:LEU195 3.7 27.0 1.0
CD1 A:LEU195 4.0 29.0 1.0
C A:PRO194 4.1 30.7 1.0
CG A:GLU233 4.1 22.7 1.0
O A:HOH618 4.2 36.9 1.0
O A:LEU195 4.2 30.6 1.0
CA A:PRO194 4.2 25.1 1.0
C A:LEU195 4.3 32.3 1.0
OH A:TYR77 4.5 28.5 1.0
N A:ALA193 4.5 24.8 1.0
OE2 A:GLU233 4.6 27.0 1.0
CE2 A:TYR77 4.7 25.7 1.0
CZ A:ARG40 4.7 42.4 1.0
CD2 A:LEU195 4.7 29.5 1.0
CD A:ARG73 4.8 35.1 1.0
O A:GLU192 4.8 25.1 1.0
CG A:PRO194 4.9 29.4 1.0
CA A:GLU233 4.9 20.4 1.0

Sodium binding site 2 out of 3 in 4ls8

Go back to Sodium Binding Sites List in 4ls8
Sodium binding site 2 out of 3 in the Crystal Structure of Bacillus Subtilis Beta-Ketoacyl-Acp Synthase II (Fabf) in A Covalent Complex with Cerulenin


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Crystal Structure of Bacillus Subtilis Beta-Ketoacyl-Acp Synthase II (Fabf) in A Covalent Complex with Cerulenin within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na506

b:36.6
occ:1.00
 O A:HOH656 3.0 36.2 1.0
N A:VAL21 3.1 25.9 1.0
SD A:MET84 3.1 38.9 1.0
N A:ALA13 3.1 24.2 1.0
CA A:ASP20 3.3 24.7 1.0
CB A:ASP20 3.4 26.2 1.0
CG2 A:VAL21 3.6 27.4 1.0
CA A:GLY12 3.6 20.4 1.0
CB A:MET84 3.6 25.9 1.0
C A:ASP20 3.6 29.5 1.0
CE A:MET84 3.6 33.7 1.0
O A:ALA13 3.6 24.6 1.0
C A:GLY12 3.8 25.9 1.0
CG A:MET84 3.9 32.5 1.0
CB A:VAL21 4.0 28.8 1.0
O A:HOH773 4.1 38.1 1.0
CA A:VAL21 4.1 25.7 1.0
CA A:ALA13 4.2 23.4 1.0
C A:ALA13 4.3 26.5 1.0
O A:LEU11 4.4 22.2 1.0
N A:ASP20 4.5 24.3 1.0
N A:GLY12 4.7 20.3 1.0
O A:ASN19 4.7 29.0 1.0
O A:HOH770 4.8 46.5 1.0
O A:ASP20 4.8 29.0 1.0
CB A:ALA13 4.8 23.7 1.0
CG A:ASP20 4.9 34.6 1.0
C A:LEU11 4.9 24.6 1.0
CA A:MET84 4.9 23.3 1.0
O A:HOH679 5.0 40.1 1.0

Sodium binding site 3 out of 3 in 4ls8

Go back to Sodium Binding Sites List in 4ls8
Sodium binding site 3 out of 3 in the Crystal Structure of Bacillus Subtilis Beta-Ketoacyl-Acp Synthase II (Fabf) in A Covalent Complex with Cerulenin


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 3 of Crystal Structure of Bacillus Subtilis Beta-Ketoacyl-Acp Synthase II (Fabf) in A Covalent Complex with Cerulenin within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Na502

b:40.8
occ:1.00
 O B:GLY108 2.7 31.4 1.0
OD1 A:ASP141 2.7 34.2 1.0
N B:ALA163 3.1 29.9 1.0
CA B:ALA163 3.2 30.6 1.0
CG1 B:VAL161 3.5 29.4 1.0
C B:GLY108 3.5 32.8 1.0
CB A:ILE139 3.6 28.3 1.0
CG A:ASP141 3.6 33.2 1.0
CA B:GLY108 3.7 28.4 1.0
CG2 A:ILE139 3.8 29.0 1.0
CB B:ALA163 3.9 31.6 1.0
OD2 A:ASP141 4.0 33.4 1.0
CD1 A:ILE139 4.0 31.3 1.0
C7 B:1XG501 4.1 44.8 1.0
CG1 A:ILE139 4.3 28.4 1.0
C B:THR162 4.3 31.4 1.0
C6 B:1XG501 4.4 44.7 1.0
C B:ALA163 4.5 34.4 1.0
N B:THR162 4.5 27.6 1.0
CD A:PRO140 4.6 26.0 1.0
C B:VAL161 4.6 31.1 1.0
CA A:ILE139 4.7 24.6 1.0
O B:ALA163 4.7 32.2 1.0
CA B:THR162 4.7 26.8 1.0
N B:ILE109 4.8 30.5 1.0
CB B:VAL161 4.8 29.1 1.0
CB A:ASP141 4.8 26.4 1.0
OG1 B:THR166 4.9 27.8 1.0
O B:VAL161 4.9 29.8 1.0

Reference:

F.Trajtenberg, S.Altabe, N.Larrieux, F.Ficarra, D.De Mendoza, A.Buschiazzo, G.E.Schujman. Structural Insights Into Bacterial Resistance to Cerulenin. Febs J. V. 281 2324 2014.
ISSN: ISSN 1742-464X
PubMed: 24641521
DOI: 10.1111/FEBS.12785
Page generated: Mon Oct 7 16:50:25 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