Atomistry » Calcium » PDB 1zf0-2a2z » 1zzh
Atomistry »
  Calcium »
    PDB 1zf0-2a2z »
      1zzh »

Calcium in PDB 1zzh: Structure of the Fully Oxidized Di-Heme Cytochrome C Peroxidase From R. Capsulatus

Enzymatic activity of Structure of the Fully Oxidized Di-Heme Cytochrome C Peroxidase From R. Capsulatus

All present enzymatic activity of Structure of the Fully Oxidized Di-Heme Cytochrome C Peroxidase From R. Capsulatus:
1.11.1.5;

Protein crystallography data

The structure of Structure of the Fully Oxidized Di-Heme Cytochrome C Peroxidase From R. Capsulatus, PDB code: 1zzh was solved by L.De Smet, S.N.Savvides, E.Van Horen, G.Pettigrew, J.J.Vanbeeumen, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 30.00 / 2.70
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 64.630, 132.470, 163.940, 90.00, 90.00, 90.00
R / Rfree (%) 24.9 / 27.8

Other elements in 1zzh:

The structure of Structure of the Fully Oxidized Di-Heme Cytochrome C Peroxidase From R. Capsulatus also contains other interesting chemical elements:

Iron (Fe) 8 atoms
Zinc (Zn) 8 atoms

Calcium Binding Sites:

The binding sites of Calcium atom in the Structure of the Fully Oxidized Di-Heme Cytochrome C Peroxidase From R. Capsulatus (pdb code 1zzh). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 4 binding sites of Calcium where determined in the Structure of the Fully Oxidized Di-Heme Cytochrome C Peroxidase From R. Capsulatus, PDB code: 1zzh:
Jump to Calcium binding site number: 1; 2; 3; 4;

Calcium binding site 1 out of 4 in 1zzh

Go back to Calcium Binding Sites List in 1zzh
Calcium binding site 1 out of 4 in the Structure of the Fully Oxidized Di-Heme Cytochrome C Peroxidase From R. Capsulatus


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Structure of the Fully Oxidized Di-Heme Cytochrome C Peroxidase From R. Capsulatus within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca401

b:46.1
occ:1.00
 O A:HOH1030 2.2 23.1 1.0
O A:PRO261 2.3 31.5 1.0
O A:HOH1029 2.3 31.3 1.0
OD1 A:ASN82 2.4 44.3 1.0
O A:THR259 2.4 32.9 1.0
CG A:ASN82 3.4 41.5 1.0
C A:PRO261 3.5 30.8 1.0
C A:THR259 3.6 33.7 1.0
ND2 A:ASN82 3.9 40.9 1.0
O1A A:HEC803 4.0 52.0 1.0
CA A:TYR262 4.0 33.0 1.0
CD2 A:TYR262 4.2 37.7 1.0
CB A:THR259 4.2 37.0 1.0
N A:TYR262 4.2 31.6 1.0
OG1 A:THR259 4.2 42.5 1.0
O2A A:HEC803 4.3 53.1 1.0
C A:ALA260 4.3 30.2 1.0
N A:PRO261 4.4 29.9 1.0
O A:ALA83 4.5 49.1 1.0
CA A:ALA260 4.5 32.1 1.0
N A:ALA260 4.5 32.3 1.0
CA A:THR259 4.5 35.2 1.0
CA A:PRO261 4.6 30.1 1.0
CGA A:HEC803 4.6 50.1 1.0
CB A:ASN82 4.6 41.2 1.0
O A:ALA260 4.7 30.9 1.0
CE2 A:TYR262 4.8 38.4 1.0
C A:TYR262 4.8 32.8 1.0
CG A:TYR262 4.9 36.8 1.0
CB A:TYR262 4.9 34.2 1.0
CG1 A:VAL65 5.0 44.3 1.0
N A:PHE263 5.0 32.9 1.0
CD A:PRO261 5.0 29.6 1.0

Calcium binding site 2 out of 4 in 1zzh

Go back to Calcium Binding Sites List in 1zzh
Calcium binding site 2 out of 4 in the Structure of the Fully Oxidized Di-Heme Cytochrome C Peroxidase From R. Capsulatus


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Structure of the Fully Oxidized Di-Heme Cytochrome C Peroxidase From R. Capsulatus within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca501

b:40.1
occ:1.00
 OD1 B:ASN82 2.2 43.9 1.0
O B:THR259 2.4 28.4 1.0
O B:PRO261 2.5 30.2 1.0
CG B:ASN82 3.4 42.2 1.0
C B:THR259 3.6 27.8 1.0
C B:PRO261 3.8 29.8 1.0
O B:HOH1010 3.8 26.1 1.0
ND2 B:ASN82 3.9 41.1 1.0
CB B:THR259 4.1 31.3 1.0
O B:ALA83 4.1 43.1 1.0
O B:HOH1032 4.1 26.7 1.0
OG1 B:THR259 4.2 34.9 1.0
O1A B:HEC402 4.3 47.7 1.0
O2A B:HEC402 4.3 53.2 1.0
CA B:TYR262 4.4 32.5 1.0
C B:ALA260 4.5 27.9 1.0
CD2 B:TYR262 4.5 32.1 1.0
CA B:THR259 4.5 29.1 1.0
N B:PRO261 4.5 28.9 1.0
N B:TYR262 4.5 31.2 1.0
CB B:ASN82 4.6 40.8 1.0
N B:ALA260 4.6 27.5 1.0
CA B:ALA260 4.7 28.1 1.0
CG1 B:VAL65 4.7 43.4 1.0
CGA B:HEC402 4.8 49.9 1.0
O B:ALA260 4.8 27.8 1.0
CA B:PRO261 4.8 28.8 1.0
CG2 B:VAL65 5.0 31.6 1.0
CE2 B:TYR262 5.0 33.7 1.0

Calcium binding site 3 out of 4 in 1zzh

Go back to Calcium Binding Sites List in 1zzh
Calcium binding site 3 out of 4 in the Structure of the Fully Oxidized Di-Heme Cytochrome C Peroxidase From R. Capsulatus


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of Structure of the Fully Oxidized Di-Heme Cytochrome C Peroxidase From R. Capsulatus within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Ca601

b:45.5
occ:1.00
 O C:THR259 2.2 29.0 1.0
OD1 C:ASN82 2.4 44.1 1.0
O C:PRO261 2.6 31.0 1.0
C C:THR259 3.4 27.4 1.0
CG C:ASN82 3.5 39.9 1.0
CB C:THR259 3.8 29.6 1.0
C C:PRO261 3.9 29.6 1.0
OG1 C:THR259 4.0 33.4 1.0
ND2 C:ASN82 4.0 40.2 1.0
O C:ALA83 4.1 42.5 1.0
O C:HOH1011 4.2 19.7 1.0
CA C:THR259 4.2 28.1 1.0
C C:ALA260 4.3 30.9 1.0
N C:ALA260 4.4 27.5 1.0
O2A C:HEC402 4.4 41.1 1.0
O1A C:HEC402 4.5 36.2 1.0
CD2 C:TYR262 4.5 27.7 1.0
N C:PRO261 4.5 31.2 1.0
CG1 C:VAL65 4.5 39.0 1.0
CA C:ALA260 4.5 30.2 1.0
O C:ALA260 4.6 30.1 1.0
CA C:TYR262 4.6 30.2 1.0
N C:TYR262 4.7 29.1 1.0
CG2 C:VAL65 4.7 29.9 1.0
CB C:ASN82 4.8 39.8 1.0
CA C:PRO261 4.9 29.1 1.0
CE2 C:TYR262 4.9 26.3 1.0
CGA C:HEC402 4.9 36.8 1.0

Calcium binding site 4 out of 4 in 1zzh

Go back to Calcium Binding Sites List in 1zzh
Calcium binding site 4 out of 4 in the Structure of the Fully Oxidized Di-Heme Cytochrome C Peroxidase From R. Capsulatus


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of Structure of the Fully Oxidized Di-Heme Cytochrome C Peroxidase From R. Capsulatus within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Ca701

b:53.5
occ:1.00
 O D:THR259 2.2 43.3 1.0
OD1 D:ASN82 2.2 47.5 1.0
O D:PRO261 2.4 40.3 1.0
CG D:ASN82 3.3 45.9 1.0
C D:THR259 3.4 40.7 1.0
C D:PRO261 3.7 38.6 1.0
ND2 D:ASN82 3.7 47.8 1.0
CB D:THR259 4.0 39.5 1.0
O D:ALA83 4.1 45.5 1.0
C D:ALA260 4.1 38.6 1.0
OG1 D:THR259 4.2 37.8 1.0
N D:PRO261 4.2 38.2 1.0
O D:ALA260 4.3 40.8 1.0
CA D:THR259 4.3 39.8 1.0
N D:ALA260 4.4 38.7 1.0
CG1 D:VAL65 4.4 42.7 1.0
CA D:ALA260 4.4 38.5 1.0
CA D:TYR262 4.5 37.3 1.0
N D:TYR262 4.6 38.5 1.0
CD2 D:TYR262 4.6 38.8 1.0
CB D:ASN82 4.6 44.6 1.0
CA D:PRO261 4.6 37.5 1.0
O1A D:HEC402 4.6 50.2 1.0
O2A D:HEC402 4.7 49.6 1.0
CD D:PRO261 4.8 36.3 1.0
CG2 D:VAL65 4.8 37.9 1.0

Reference:

L.De Smet, S.N.Savvides, E.Van Horen, G.Pettigrew, J.J.Van Beeumen. Structural and Mutagenesis Studies on the Cytochrome C Peroxidase From Rhodobacter Capsulatus Provide New Insights Into Structure-Function Relationships of Bacterial Di-Heme Peroxidases J.Biol.Chem. V. 281 4371 2006.
ISSN: ISSN 0021-9258
PubMed: 16314410
DOI: 10.1074/JBC.M509582200
Page generated: Fri Jul 12 08:29:32 2024

Last articles

Zn in 9JPJ
Zn in 9JP7
Zn in 9JPK
Zn in 9JPL
Zn in 9GN6
Zn in 9GN7
Zn in 9GKU
Zn in 9GKW
Zn in 9GKX
Zn in 9GL0
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy