Calcium in PDB 6s07: Structure of Formylglycine-Generating Enzyme at 1.04 A in Complex with Copper and Substrate Reveals An Acidic Pocket For Binding and Acti- Vation of Molecular Oxygen.

Enzymatic activity of Structure of Formylglycine-Generating Enzyme at 1.04 A in Complex with Copper and Substrate Reveals An Acidic Pocket For Binding and Acti- Vation of Molecular Oxygen.

All present enzymatic activity of Structure of Formylglycine-Generating Enzyme at 1.04 A in Complex with Copper and Substrate Reveals An Acidic Pocket For Binding and Acti- Vation of Molecular Oxygen.:
1.8.3.7;

Protein crystallography data

The structure of Structure of Formylglycine-Generating Enzyme at 1.04 A in Complex with Copper and Substrate Reveals An Acidic Pocket For Binding and Acti- Vation of Molecular Oxygen., PDB code: 6s07 was solved by F.Leisinger, D.A.Miarzlou, F.P.Seebeck, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 46.48 / 1.04
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 58.409, 71.939, 76.733, 90.00, 90.00, 90.00
R / Rfree (%) 17.3 / 18

Other elements in 6s07:

The structure of Structure of Formylglycine-Generating Enzyme at 1.04 A in Complex with Copper and Substrate Reveals An Acidic Pocket For Binding and Acti- Vation of Molecular Oxygen. also contains other interesting chemical elements:

Chlorine (Cl) 1 atom
Copper (Cu) 1 atom

Calcium Binding Sites:

The binding sites of Calcium atom in the Structure of Formylglycine-Generating Enzyme at 1.04 A in Complex with Copper and Substrate Reveals An Acidic Pocket For Binding and Acti- Vation of Molecular Oxygen. (pdb code 6s07). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 2 binding sites of Calcium where determined in the Structure of Formylglycine-Generating Enzyme at 1.04 A in Complex with Copper and Substrate Reveals An Acidic Pocket For Binding and Acti- Vation of Molecular Oxygen., PDB code: 6s07:
Jump to Calcium binding site number: 1; 2;

Calcium binding site 1 out of 2 in 6s07

Go back to Calcium Binding Sites List in 6s07
Calcium binding site 1 out of 2 in the Structure of Formylglycine-Generating Enzyme at 1.04 A in Complex with Copper and Substrate Reveals An Acidic Pocket For Binding and Acti- Vation of Molecular Oxygen.


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Structure of Formylglycine-Generating Enzyme at 1.04 A in Complex with Copper and Substrate Reveals An Acidic Pocket For Binding and Acti- Vation of Molecular Oxygen. within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca402

b:12.0
occ:1.00
O A:VAL227 2.6 6.7 1.0
O A:GLY225 2.6 7.4 1.0
O A:VAL223 2.7 9.5 1.0
HA3 A:GLY264 3.0 10.1 1.0
O A:ASN222 3.1 8.4 1.0
O A:HOH600 3.2 8.1 1.0
O A:GLY265 3.2 8.8 1.0
OE2 A:GLU229 3.3 9.5 1.0
HG3 A:GLU229 3.4 9.3 1.0
H A:VAL227 3.4 8.4 1.0
C A:VAL223 3.4 8.9 1.0
HA A:VAL223 3.6 10.2 1.0
C A:GLY225 3.6 7.7 1.0
C A:VAL227 3.7 6.7 1.0
H A:GLY225 3.7 9.6 1.0
N A:GLY225 3.8 8.0 1.0
C A:GLY264 3.8 8.2 1.0
CA A:GLY264 3.8 8.4 1.0
O A:GLY264 3.8 11.1 1.0
CD A:GLU229 3.9 7.5 1.0
HZ2 A:TRP160 4.0 10.5 1.0
C A:ALA224 4.0 8.4 1.0
N A:VAL227 4.1 7.0 1.0
HA A:ALA224 4.1 10.2 1.0
CA A:VAL223 4.1 8.5 1.0
CG A:GLU229 4.1 7.8 1.0
C A:ASN222 4.2 7.8 1.0
N A:ALA224 4.2 8.3 1.0
HA A:TRP228 4.2 7.6 1.0
HA2 A:GLY264 4.2 10.1 1.0
O A:LYS263 4.3 7.7 1.0
CA A:GLY225 4.3 8.5 1.0
CA A:ALA224 4.3 8.5 1.0
C A:GLY265 4.4 7.1 1.0
N A:GLY265 4.5 7.3 1.0
CA A:VAL227 4.5 6.9 1.0
HB3 A:ASN226 4.5 9.0 1.0
N A:TRP228 4.6 6.4 1.0
O A:ALA224 4.6 9.2 1.0
HG23 A:VAL227 4.6 9.6 1.0
HH21 A:ARG297 4.6 9.4 1.0
HA2 A:GLY225 4.6 10.2 1.0
N A:VAL223 4.6 8.2 1.0
N A:ASN226 4.8 7.8 1.0
OE1 A:GLU229 4.8 7.8 1.0
HG2 A:GLU229 4.8 9.3 1.0
CA A:TRP228 4.8 6.3 1.0
HG22 A:VAL227 4.8 9.6 1.0
HA A:SER266 4.8 9.3 1.0
HB3 A:ASN222 4.8 10.7 1.0
HB2 A:GLU229 4.9 8.3 1.0
H A:GLY265 4.9 8.8 1.0
N A:GLY264 4.9 7.0 1.0
CZ2 A:TRP160 4.9 8.8 1.0
H A:ALA224 4.9 9.9 1.0
C A:ASN226 4.9 7.1 1.0
C A:TRP228 5.0 6.2 1.0
C A:LYS263 5.0 6.8 1.0

Calcium binding site 2 out of 2 in 6s07

Go back to Calcium Binding Sites List in 6s07
Calcium binding site 2 out of 2 in the Structure of Formylglycine-Generating Enzyme at 1.04 A in Complex with Copper and Substrate Reveals An Acidic Pocket For Binding and Acti- Vation of Molecular Oxygen.


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Structure of Formylglycine-Generating Enzyme at 1.04 A in Complex with Copper and Substrate Reveals An Acidic Pocket For Binding and Acti- Vation of Molecular Oxygen. within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca403

b:9.5
occ:1.00
OD1 A:ASN188 2.3 9.3 1.0
O A:TYR204 2.4 12.5 1.0
O A:ILE189 2.4 9.9 1.0
O A:HOH539 2.4 9.7 1.0
O A:HOH532 2.4 10.8 1.0
OD2 A:ASP202 2.4 10.4 1.0
OD1 A:ASP202 2.5 12.0 1.0
CG A:ASP202 2.8 11.3 1.0
C A:ILE189 3.5 9.1 1.0
C A:TYR204 3.5 11.4 1.0
HB2 A:TYR204 3.5 13.6 1.0
H A:ILE189 3.6 11.1 1.0
CG A:ASN188 3.6 8.6 1.0
HA A:ASN188 3.7 11.5 1.0
H A:TYR204 3.7 13.5 1.0
N A:ILE189 3.7 9.2 1.0
HA A:THR205 3.9 13.7 1.0
HE22 A:GLN191 3.9 14.4 1.0
HB2 A:PHE267 4.0 11.0 1.0
HA A:TRP190 4.0 10.7 1.0
HA2 A:GLY200 4.1 17.9 1.0
C A:ASN188 4.1 8.7 1.0
OE1 A:GLN191 4.2 13.1 1.0
CA A:ASN188 4.2 9.6 1.0
CA A:ILE189 4.2 8.7 1.0
CA A:TYR204 4.3 11.3 1.0
OD2 A:ASP198 4.3 11.3 1.0
CB A:TYR204 4.3 11.3 1.0
CB A:ASP202 4.3 12.6 1.0
N A:TYR204 4.3 11.3 1.0
HD21 A:ASN188 4.4 10.9 1.0
H A:ASP202 4.4 16.0 1.0
ND2 A:ASN188 4.5 9.1 1.0
CB A:ASN188 4.5 9.7 1.0
O A:PHE267 4.5 9.2 1.0
HA A:PHE267 4.5 10.2 1.0
NE2 A:GLN191 4.5 12.0 1.0
N A:TRP190 4.5 9.0 1.0
N A:THR205 4.5 11.6 1.0
OD1 A:ASP198 4.5 11.6 1.0
HA A:ILE189 4.6 10.4 1.0
CA A:THR205 4.6 11.4 1.0
CA A:TRP190 4.7 8.9 1.0
HB3 A:ASP202 4.7 15.1 1.0
HD2 A:TYR204 4.7 16.3 1.0
CD A:GLN191 4.7 11.4 1.0
H A:GLN191 4.8 12.5 1.0
HB2 A:ASP202 4.8 15.1 1.0
HB3 A:TYR204 4.8 13.6 1.0
CB A:PHE267 4.8 9.2 1.0
HB2 A:ASN188 4.9 11.7 1.0
CG A:ASP198 4.9 11.1 1.0
O A:ASN188 4.9 8.3 1.0
CA A:GLY200 5.0 14.9 1.0

Reference:

D.A.Miarzlou, F.Leisinger, D.Joss, D.Haussinger, F.P.Seebeck. Structure of Formylglycine-Generating Enzyme in Complex with Copper and A Substrate Reveals An Acidic Pocket For Binding and Activation of Molecular Oxygen. Chem Sci V. 10 7049 2019.
ISSN: ISSN 2041-6520
PubMed: 31588272
DOI: 10.1039/C9SC01723B
Page generated: Sat Dec 12 07:31:45 2020

Last articles

Zn in 8WB0
Zn in 8WAX
Zn in 8WAU
Zn in 8WAZ
Zn in 8WAY
Zn in 8WAV
Zn in 8WAW
Zn in 8WAT
Zn in 8W7M
Zn in 8WD3
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy