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Silver in PDB 6xtn: Crystal Structure Reveals Non-Coordinative Binding of O2 to the Copper Center of the Formylglycine-Generating Enzyme - Fge:Ag:S:No Complex

Enzymatic activity of Crystal Structure Reveals Non-Coordinative Binding of O2 to the Copper Center of the Formylglycine-Generating Enzyme - Fge:Ag:S:No Complex

All present enzymatic activity of Crystal Structure Reveals Non-Coordinative Binding of O2 to the Copper Center of the Formylglycine-Generating Enzyme - Fge:Ag:S:No Complex:
1.8.3.7;

Protein crystallography data

The structure of Crystal Structure Reveals Non-Coordinative Binding of O2 to the Copper Center of the Formylglycine-Generating Enzyme - Fge:Ag:S:No Complex, PDB code: 6xtn was solved by F.Leisinger, F.P.Seebeck, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 46.46 / 1.40
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 58.299, 71.898, 76.919, 90, 90, 90
R / Rfree (%) 16.9 / 19.6

Other elements in 6xtn:

The structure of Crystal Structure Reveals Non-Coordinative Binding of O2 to the Copper Center of the Formylglycine-Generating Enzyme - Fge:Ag:S:No Complex also contains other interesting chemical elements:

Chlorine (Cl) 1 atom
Calcium (Ca) 2 atoms

Silver Binding Sites:

The binding sites of Silver atom in the Crystal Structure Reveals Non-Coordinative Binding of O2 to the Copper Center of the Formylglycine-Generating Enzyme - Fge:Ag:S:No Complex (pdb code 6xtn). This binding sites where shown within 5.0 Angstroms radius around Silver atom.
In total 2 binding sites of Silver where determined in the Crystal Structure Reveals Non-Coordinative Binding of O2 to the Copper Center of the Formylglycine-Generating Enzyme - Fge:Ag:S:No Complex, PDB code: 6xtn:
Jump to Silver binding site number: 1; 2;

Silver binding site 1 out of 2 in 6xtn

Go back to Silver Binding Sites List in 6xtn
Silver binding site 1 out of 2 in the Crystal Structure Reveals Non-Coordinative Binding of O2 to the Copper Center of the Formylglycine-Generating Enzyme - Fge:Ag:S:No Complex


Mono view


Stereo pair view

A full contact list of Silver with other atoms in the Ag binding site number 1 of Crystal Structure Reveals Non-Coordinative Binding of O2 to the Copper Center of the Formylglycine-Generating Enzyme - Fge:Ag:S:No Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ag401

b:11.6
occ:0.85
AG A:AG401 0.0 11.6 0.8
AG A:AG401 1.1 13.0 0.1
SG A:CYS274 2.1 13.1 0.1
SG C:CYS7 2.4 13.4 1.0
SG A:CYS269 2.4 13.7 1.0
SG A:CYS274 2.5 14.0 0.9
N A:NO405 2.9 13.1 0.8
O A:NO405 3.2 17.6 0.8
CB A:CYS274 3.3 11.9 0.9
CB A:CYS274 3.4 12.2 0.1
CB A:CYS269 3.4 12.7 1.0
O A:HOH507 3.5 17.6 1.0
CB C:CYS7 3.6 10.5 1.0
CZ2 A:TRP228 3.7 11.2 1.0
CA A:CYS269 3.8 11.7 1.0
CB A:ARG276 3.9 12.6 1.0
O A:HOH641 4.0 17.6 1.0
NE1 A:TRP228 4.2 10.4 1.0
CE2 A:TRP228 4.3 9.5 1.0
N A:CYS269 4.4 12.5 1.0
N A:ARG276 4.6 13.6 1.0
CG A:ARG276 4.6 12.8 1.0
CA A:ARG276 4.7 13.5 1.0
CD A:ARG276 4.8 13.6 1.0
CH2 A:TRP228 4.8 11.4 1.0
CA C:CYS7 4.8 12.7 1.0
CA A:CYS274 4.8 13.4 0.9
CA A:CYS274 4.8 13.5 0.1
C A:ARG276 5.0 15.1 1.0

Silver binding site 2 out of 2 in 6xtn

Go back to Silver Binding Sites List in 6xtn
Silver binding site 2 out of 2 in the Crystal Structure Reveals Non-Coordinative Binding of O2 to the Copper Center of the Formylglycine-Generating Enzyme - Fge:Ag:S:No Complex


Mono view


Stereo pair view

A full contact list of Silver with other atoms in the Ag binding site number 2 of Crystal Structure Reveals Non-Coordinative Binding of O2 to the Copper Center of the Formylglycine-Generating Enzyme - Fge:Ag:S:No Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ag401

b:13.0
occ:0.15
AG A:AG401 0.0 13.0 0.1
AG A:AG401 1.1 11.6 0.8
SG A:CYS269 2.0 13.7 1.0
SG A:CYS274 2.2 13.1 0.1
SG A:CYS274 2.3 14.0 0.9
CB A:CYS269 2.8 12.7 1.0
CB A:ARG276 3.2 12.6 1.0
SG C:CYS7 3.3 13.4 1.0
CB A:CYS274 3.4 11.9 0.9
CA A:CYS269 3.5 11.7 1.0
CB A:CYS274 3.5 12.2 0.1
N A:NO405 3.5 13.1 0.8
N A:ARG276 3.6 13.6 1.0
CA A:ARG276 3.7 13.5 1.0
CZ2 A:TRP228 3.8 11.2 1.0
C A:ARG276 4.0 15.1 1.0
O A:NO405 4.0 17.6 0.8
CG A:ARG276 4.2 12.8 1.0
O A:ARG276 4.3 15.8 1.0
N A:CYS269 4.4 12.5 1.0
O A:HOH507 4.5 17.6 1.0
CB C:CYS7 4.5 10.5 1.0
O A:HOH641 4.5 17.6 1.0
N A:TYR277 4.5 14.7 1.0
CE2 A:TRP228 4.6 9.5 1.0
C A:CYS269 4.6 12.4 1.0
CD A:ARG276 4.7 13.6 1.0
CA A:CYS274 4.7 13.4 0.9
CA A:CYS274 4.7 13.5 0.1
CH2 A:TRP228 4.7 11.4 1.0
N A:HIS270 4.7 14.2 1.0
C A:CYS274 4.7 13.7 0.1
NE1 A:TRP228 4.7 10.4 1.0
C A:CYS274 4.7 13.6 0.9
N A:ASN275 4.8 14.2 1.0
CA A:GLY265 4.8 11.4 1.0
C A:ASN275 4.9 13.4 1.0

Reference:

F.Leisinger, D.A.Miarzlou, F.P.Seebeck. Crystal Structure Reveals Non-Coordinative Binding of O2 to the Copper Center of the Formylglycine-Generating Enzyme To Be Published.
Page generated: Wed Jul 10 08:35:53 2024

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