Atomistry » Calcium » PDB 6xs3-6y43 » 6xtr
Atomistry »
  Calcium »
    PDB 6xs3-6y43 »
      6xtr »

Calcium 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:

Chlorine (Cl) 2 atoms
Copper (Cu) 2 atoms

Calcium Binding Sites:

The binding sites of Calcium 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 Calcium atom.
In total 2 binding sites of Calcium 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 Calcium binding site number: 1; 2;

Calcium binding site 1 out of 2 in 6xtr

Go back to Calcium Binding Sites List in 6xtr
Calcium 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 Calcium with other atoms in the Ca 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:Ca402

b:19.0
occ:1.00
 O A:GLY225 2.5 10.5 1.0
O A:VAL227 2.6 9.5 1.0
O A:VAL223 2.8 14.5 1.0
O A:ASN222 3.1 11.9 1.0
O A:GLY265 3.2 11.3 1.0
O A:HOH606 3.2 11.0 1.0
OE2 A:GLU229 3.4 12.7 1.0
C A:VAL223 3.5 12.0 1.0
C A:GLY225 3.6 10.1 1.0
O A:GLY264 3.6 15.4 1.0
C A:VAL227 3.6 9.5 1.0
N A:GLY225 3.7 10.8 1.0
C A:GLY264 3.7 10.9 1.0
CA A:GLY264 3.8 11.8 1.0
CD A:GLU229 4.0 11.5 1.0
C A:ALA224 4.0 11.1 1.0
N A:VAL227 4.0 9.7 1.0
C A:ASN222 4.2 10.7 1.0
CA A:VAL223 4.2 11.5 1.0
CG A:GLU229 4.2 10.7 1.0
CA A:GLY225 4.2 10.8 1.0
N A:ALA224 4.2 11.9 1.0
C A:GLY265 4.3 10.6 1.0
O A:LYS263 4.3 10.3 1.0
CA A:ALA224 4.3 10.9 1.0
N A:GLY265 4.4 10.6 1.0
CA A:VAL227 4.5 9.6 1.0
N A:TRP228 4.5 9.8 1.0
O A:ALA224 4.5 12.4 1.0
N A:ASN226 4.7 10.5 1.0
N A:VAL223 4.7 11.3 1.0
CA A:TRP228 4.7 9.5 1.0
OE1 A:GLU229 4.8 11.5 1.0
N A:GLY264 4.9 10.2 1.0
C A:ASN226 4.9 10.0 1.0
CA A:GLY265 4.9 10.2 1.0
CZ2 A:TRP160 5.0 12.3 1.0
C A:TRP228 5.0 9.6 1.0

Calcium binding site 2 out of 2 in 6xtr

Go back to Calcium Binding Sites List in 6xtr
Calcium 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 Calcium with other atoms in the Ca 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:Ca403

b:11.8
occ:1.00
 O A:TYR204 2.3 13.0 1.0
O A:HOH547 2.3 13.8 1.0
OD1 A:ASN188 2.3 12.0 1.0
O A:HOH560 2.4 11.7 1.0
O A:ILE189 2.4 12.3 1.0
OD2 A:ASP202 2.4 12.8 1.0
OD1 A:ASP202 2.5 13.9 1.0
CG A:ASP202 2.8 13.3 1.0
C A:TYR204 3.5 11.9 1.0
C A:ILE189 3.5 12.0 1.0
CG A:ASN188 3.6 11.2 1.0
N A:ILE189 3.8 11.4 1.0
C A:ASN188 4.1 11.9 1.0
OE1 A:GLN191 4.1 13.9 1.0
CA A:ASN188 4.2 12.0 1.0
CA A:ILE189 4.3 11.0 1.0
CA A:TYR204 4.3 13.9 1.0
CB A:ASP202 4.3 14.5 1.0
OD2 A:ASP198 4.3 14.4 1.0
N A:TYR204 4.3 14.0 1.0
CB A:TYR204 4.3 13.8 1.0
ND2 A:ASN188 4.5 11.3 1.0
NE2 A:GLN191 4.5 14.2 1.0
N A:THR205 4.5 12.3 1.0
CB A:ASN188 4.5 11.0 1.0
O A:PHE267 4.5 12.0 1.0
OD1 A:ASP198 4.5 13.4 1.0
N A:TRP190 4.5 12.2 1.0
CA A:THR205 4.6 13.0 1.0
CD A:GLN191 4.7 14.2 1.0
CA A:TRP190 4.7 13.2 1.0
CB A:PHE267 4.8 12.3 1.0
CG A:ASP198 4.9 13.9 1.0
O A:ASN188 4.9 11.2 1.0
CA A:GLY200 5.0 16.1 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 9 20:06:16 2025

Last articles

Mg in 3CC2
Mg in 3CCE
Mg in 3CC7
Mg in 3CC4
Mg in 3CB3
Mg in 3CC6
Mg in 3C9U
Mg in 3CBT
Mg in 3CBQ
Mg in 3CBG
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy