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Chlorine in PDB 9jfb: Crystal Structure of L-Threonine-O-3-Phosphate Decarboxylase Cobc

Enzymatic activity of Crystal Structure of L-Threonine-O-3-Phosphate Decarboxylase Cobc

All present enzymatic activity of Crystal Structure of L-Threonine-O-3-Phosphate Decarboxylase Cobc:
4.1.1.81;

Protein crystallography data

The structure of Crystal Structure of L-Threonine-O-3-Phosphate Decarboxylase Cobc, PDB code: 9jfb was solved by M.Jiang, S.Guo, X.Chen, Q.Wei, M.Wang, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 39.85 / 2.20
Space group I 21 3
Cell size a, b, c (Å), α, β, γ (°) 159.418, 159.418, 159.418, 90, 90, 90
R / Rfree (%) 15.5 / 18.5

Other elements in 9jfb:

The structure of Crystal Structure of L-Threonine-O-3-Phosphate Decarboxylase Cobc also contains other interesting chemical elements:

Sodium (Na) 1 atom

Chlorine Binding Sites:

The binding sites of Chlorine atom in the Crystal Structure of L-Threonine-O-3-Phosphate Decarboxylase Cobc (pdb code 9jfb). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 4 binding sites of Chlorine where determined in the Crystal Structure of L-Threonine-O-3-Phosphate Decarboxylase Cobc, PDB code: 9jfb:
Jump to Chlorine binding site number: 1; 2; 3; 4;

Chlorine binding site 1 out of 4 in 9jfb

Go back to Chlorine Binding Sites List in 9jfb
Chlorine binding site 1 out of 4 in the Crystal Structure of L-Threonine-O-3-Phosphate Decarboxylase Cobc


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 1 of Crystal Structure of L-Threonine-O-3-Phosphate Decarboxylase Cobc within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl413

b:71.3
occ:1.00
 N A:ASN70 3.3 41.3 1.0
CA A:ARG68 3.5 37.6 0.5
CA A:ARG68 3.6 37.6 0.5
C A:ARG68 3.6 42.0 1.0
O A:HOH665 3.6 44.9 1.0
CA A:ASN70 3.8 42.7 0.5
O A:HOH666 3.8 58.4 1.0
OD1 A:ASN70 3.8 42.6 0.5
N A:THR69 3.8 39.7 1.0
CA A:ASN70 3.8 42.6 0.5
CB A:ARG68 4.0 43.7 0.5
CB A:ARG68 4.0 43.7 0.5
O A:ARG68 4.1 36.9 1.0
C A:THR69 4.4 39.4 1.0
CG A:ARG68 4.4 44.1 0.5
CG A:ASN70 4.5 44.2 0.5
O A:HOH684 4.5 50.6 1.0
CA A:THR69 4.7 36.2 1.0
O A:ALA64 4.7 29.4 1.0
N A:GLY71 4.7 39.4 1.0
CB A:ASN70 4.7 41.7 0.5
C A:ASN70 4.8 42.9 1.0
N A:ARG68 4.8 35.0 1.0
CB A:ASN70 4.8 41.7 0.5
CG A:ARG68 5.0 44.3 0.5

Chlorine binding site 2 out of 4 in 9jfb

Go back to Chlorine Binding Sites List in 9jfb
Chlorine binding site 2 out of 4 in the Crystal Structure of L-Threonine-O-3-Phosphate Decarboxylase Cobc


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 2 of Crystal Structure of L-Threonine-O-3-Phosphate Decarboxylase Cobc within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl414

b:66.7
occ:1.00
 O A:HOH569 2.9 42.5 1.0
ND2 A:ASN141 3.1 33.7 1.0
O3 A:GOL401 3.6 50.6 1.0
CE2 A:PHE172 3.8 28.4 1.0
CB A:ASN141 3.9 29.0 1.0
CG A:TYR104 3.9 34.4 1.0
CG A:ASN141 4.0 36.3 1.0
CD1 A:TYR104 4.0 31.6 1.0
CB A:TYR104 4.1 26.9 1.0
CB A:ALA171 4.2 25.7 1.0
CD2 A:TYR104 4.2 32.4 1.0
O A:HOH508 4.3 42.3 1.0
CE A:LYS199 4.4 44.1 1.0
CD2 A:PHE172 4.4 27.4 1.0
O A:HOH598 4.4 40.8 1.0
CE1 A:TYR104 4.5 38.1 1.0
CG1 A:VAL137 4.6 30.2 1.0
OD2 A:ASP169 4.6 32.0 1.0
NZ A:LYS199 4.7 40.7 1.0
CZ A:PHE172 4.7 29.4 1.0
CE2 A:TYR104 4.7 29.3 1.0
C3 A:GOL401 4.8 43.0 1.0
CZ A:TYR104 4.8 33.0 1.0

Chlorine binding site 3 out of 4 in 9jfb

Go back to Chlorine Binding Sites List in 9jfb
Chlorine binding site 3 out of 4 in the Crystal Structure of L-Threonine-O-3-Phosphate Decarboxylase Cobc


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 3 of Crystal Structure of L-Threonine-O-3-Phosphate Decarboxylase Cobc within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl415

b:70.6
occ:0.70
 N A:GLY20 3.3 39.7 1.0
O A:HOH768 3.5 65.6 1.0
CA A:GLY19 3.7 31.4 1.0
O A:HOH796 4.0 60.8 1.0
C A:GLY19 4.0 43.5 1.0
CA A:GLY20 4.2 43.1 1.0
C A:GLY20 4.9 45.1 1.0
O A:GLY20 5.0 47.0 1.0

Chlorine binding site 4 out of 4 in 9jfb

Go back to Chlorine Binding Sites List in 9jfb
Chlorine binding site 4 out of 4 in the Crystal Structure of L-Threonine-O-3-Phosphate Decarboxylase Cobc


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 4 of Crystal Structure of L-Threonine-O-3-Phosphate Decarboxylase Cobc within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl416

b:76.8
occ:1.00
 O A:HOH501 3.0 47.1 1.0
ND1 A:HIS184 3.2 48.2 1.0
O A:HOH732 3.3 55.4 1.0
CA A:GLY187 3.7 36.1 1.0
C A:GLY187 4.0 38.7 1.0
CG A:HIS184 4.1 42.0 1.0
CE1 A:HIS184 4.1 46.0 1.0
N A:GLN188 4.2 36.9 1.0
CB A:HIS184 4.2 36.5 1.0
O A:HOH701 4.4 44.5 1.0
O A:GLY187 4.5 45.0 1.0
N A:GLY187 4.5 39.3 1.0
O A:HIS184 4.5 33.9 1.0
CA A:HIS184 4.6 34.0 1.0
CA A:GLN188 5.0 34.7 1.0

Reference:

M.Jiang, S.Guo, X.Chen, Q.Wei, M.Wang. Crystal Structure of L-Threonine-O-3-Phosphate Decarboxylase Cobc From Sinorhizobium Meliloti Involved in Vitamin B 12 Biosynthesis. Biochem.Biophys.Res.Commun. V. 734 50767 2024.
ISSN: ESSN 1090-2104
PubMed: 39366178
DOI: 10.1016/J.BBRC.2024.150767
Page generated: Thu Oct 31 18:17:30 2024

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