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Copper in PDB 6xtr: Crystal Structure Reveals Non-Coordinative Binding of O2 to the Copper Center of the Formylglycine-Generating Enzyme - Fge:Cu:S:O2-1C Complex

Enzymatic activity of Crystal Structure Reveals Non-Coordinative Binding of O2 to the Copper Center of the Formylglycine-Generating Enzyme - Fge:Cu:S:O2-1C Complex

All present enzymatic activity of Crystal Structure Reveals Non-Coordinative Binding of O2 to the Copper Center of the Formylglycine-Generating Enzyme - Fge:Cu:S:O2-1C 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:Cu:S:O2-1C Complex, PDB code: 6xtr 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) 46.19 / 1.20
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 57.97, 71.674, 76.435, 90, 90, 90
R / Rfree (%) 18.9 / 20.6

Other elements in 6xtr:

The structure of Crystal Structure Reveals Non-Coordinative Binding of O2 to the Copper Center of the Formylglycine-Generating Enzyme - Fge:Cu:S:O2-1C Complex also contains other interesting chemical elements:

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

Copper Binding Sites:

The binding sites of Copper atom in the Crystal Structure Reveals Non-Coordinative Binding of O2 to the Copper Center of the Formylglycine-Generating Enzyme - Fge:Cu:S:O2-1C Complex (pdb code 6xtr). This binding sites where shown within 5.0 Angstroms radius around Copper atom.
In total 2 binding sites of Copper where determined in the Crystal Structure Reveals Non-Coordinative Binding of O2 to the Copper Center of the Formylglycine-Generating Enzyme - Fge:Cu:S:O2-1C Complex, PDB code: 6xtr:
Jump to Copper binding site number: 1; 2;

Copper binding site 1 out of 2 in 6xtr

Go back to Copper Binding Sites List in 6xtr
Copper 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:Cu:S:O2-1C Complex


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 1 of Crystal Structure Reveals Non-Coordinative Binding of O2 to the Copper Center of the Formylglycine-Generating Enzyme - Fge:Cu:S:O2-1C Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cu401

b:11.2
occ:0.76
 CU A:CU1401 0.0 11.2 0.8
CU A:CU1401 1.1 15.3 0.2
SG A:CYS274 2.0 17.0 0.2
SG C:CYS7 2.2 11.9 0.8
SG A:CYS269 2.3 13.4 1.0
SG A:CYS274 2.3 12.1 0.8
O2 A:OXY406 3.1 14.0 0.7
CB A:CYS274 3.2 12.8 0.8
CB A:CYS274 3.2 12.7 0.2
O1 A:OXY406 3.2 21.3 0.7
CB A:CYS269 3.3 13.3 1.0
CB C:CYS7 3.4 12.4 1.0
O A:HOH505 3.5 16.4 1.0
CA A:CYS269 3.6 12.0 1.0
CZ2 A:TRP228 3.8 12.1 1.0
CB A:ARG276 3.9 13.8 1.0
O A:HOH572 4.0 19.5 1.0
N A:CYS269 4.4 11.8 1.0
NE1 A:TRP228 4.4 11.5 1.0
CE2 A:TRP228 4.5 11.0 1.0
N A:ARG276 4.5 13.7 1.0
CA C:CYS7 4.6 12.6 1.0
CA A:CYS274 4.6 13.4 0.2
CA A:CYS274 4.6 13.4 0.8
CA A:ARG276 4.7 13.3 1.0
CG A:ARG276 4.7 14.1 1.0
CD A:ARG276 4.8 13.1 1.0
CH2 A:TRP228 4.8 11.8 1.0
C A:CYS269 4.9 11.8 1.0
C A:CYS274 4.9 14.1 0.2
NH1 A:ARG276 5.0 13.7 1.0
N A:HIS270 5.0 13.8 1.0

Copper binding site 2 out of 2 in 6xtr

Go back to Copper Binding Sites List in 6xtr
Copper 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:Cu:S:O2-1C Complex


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 2 of Crystal Structure Reveals Non-Coordinative Binding of O2 to the Copper Center of the Formylglycine-Generating Enzyme - Fge:Cu:S:O2-1C Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cu401

b:15.3
occ:0.24
 CU A:CU1401 0.0 15.3 0.2
CU A:CU1401 1.1 11.2 0.8
SG A:CYS274 1.9 17.0 0.2
SG A:CYS269 2.0 13.4 1.0
SG A:CYS274 2.1 12.1 0.8
CB A:CYS269 2.8 13.3 1.0
SG C:CYS7 3.1 11.9 0.8
CB A:ARG276 3.2 13.8 1.0
CB A:CYS274 3.3 12.8 0.8
CB A:CYS274 3.3 12.7 0.2
CA A:CYS269 3.5 12.0 1.0
N A:ARG276 3.5 13.7 1.0
CA A:ARG276 3.7 13.3 1.0
O2 A:OXY406 3.8 14.0 0.7
CZ2 A:TRP228 3.9 12.1 1.0
C A:ARG276 4.1 15.0 1.0
O1 A:OXY406 4.1 21.3 0.7
CG A:ARG276 4.2 14.1 1.0
CB C:CYS7 4.3 12.4 1.0
C A:CYS274 4.4 14.1 0.2
N A:CYS269 4.4 11.8 1.0
CA A:CYS274 4.4 13.4 0.2
O A:ARG276 4.5 16.4 1.0
CA A:CYS274 4.5 13.4 0.8
O A:HOH505 4.5 16.4 1.0
C A:CYS274 4.5 14.1 0.8
C A:CYS269 4.6 11.8 1.0
N A:TYR277 4.6 14.6 1.0
CD A:ARG276 4.6 13.1 1.0
O A:HOH572 4.6 19.5 1.0
N A:HIS270 4.6 13.8 1.0
CH2 A:TRP228 4.7 11.8 1.0
CE2 A:TRP228 4.7 11.0 1.0
C A:ASN275 4.8 14.0 1.0
N A:ASN275 4.8 14.9 1.0
CA A:GLY265 4.8 10.2 1.0
NE1 A:TRP228 4.9 11.5 1.0
O A:CYS274 5.0 14.4 0.2
O A:CYS274 5.0 14.4 0.8

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 31 07:51:07 2024

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