Calcium in PDB 7zs8: Mixed-Valence, Active Form, of Cytochrome C Peroxidase From Obligate Human Pathogenic Bacterium Neisseria Gonorrhoeae at 1.4 Angstrom Resolution

Enzymatic activity of Mixed-Valence, Active Form, of Cytochrome C Peroxidase From Obligate Human Pathogenic Bacterium Neisseria Gonorrhoeae at 1.4 Angstrom Resolution

All present enzymatic activity of Mixed-Valence, Active Form, of Cytochrome C Peroxidase From Obligate Human Pathogenic Bacterium Neisseria Gonorrhoeae at 1.4 Angstrom Resolution:
1.11.1.5;

Protein crystallography data

The structure of Mixed-Valence, Active Form, of Cytochrome C Peroxidase From Obligate Human Pathogenic Bacterium Neisseria Gonorrhoeae at 1.4 Angstrom Resolution, PDB code: 7zs8 was solved by A.L.Carvalho, M.J.Romao, S.Pauleta, C.Nobrega, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 39.95 / 1.40
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 78.842, 89.144, 89.731, 90, 90, 90
R / Rfree (%) 19.6 / 22.1

Other elements in 7zs8:

The structure of Mixed-Valence, Active Form, of Cytochrome C Peroxidase From Obligate Human Pathogenic Bacterium Neisseria Gonorrhoeae at 1.4 Angstrom Resolution also contains other interesting chemical elements:

Sodium (Na) 2 atoms
Iron (Fe) 4 atoms

Calcium Binding Sites:

The binding sites of Calcium atom in the Mixed-Valence, Active Form, of Cytochrome C Peroxidase From Obligate Human Pathogenic Bacterium Neisseria Gonorrhoeae at 1.4 Angstrom Resolution (pdb code 7zs8). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 2 binding sites of Calcium where determined in the Mixed-Valence, Active Form, of Cytochrome C Peroxidase From Obligate Human Pathogenic Bacterium Neisseria Gonorrhoeae at 1.4 Angstrom Resolution, PDB code: 7zs8:
Jump to Calcium binding site number: 1; 2;

Calcium binding site 1 out of 2 in 7zs8

Go back to Calcium Binding Sites List in 7zs8
Calcium binding site 1 out of 2 in the Mixed-Valence, Active Form, of Cytochrome C Peroxidase From Obligate Human Pathogenic Bacterium Neisseria Gonorrhoeae at 1.4 Angstrom Resolution


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Mixed-Valence, Active Form, of Cytochrome C Peroxidase From Obligate Human Pathogenic Bacterium Neisseria Gonorrhoeae at 1.4 Angstrom Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca403

b:12.8
occ:1.00
 OD1 A:ASN83 2.3 13.0 1.0
O A:PRO263 2.3 15.3 1.0
O A:HOH605 2.4 11.0 1.0
O A:THR261 2.4 13.2 1.0
O A:HOH539 2.4 13.0 1.0
O A:HOH535 2.4 13.1 1.0
O A:HOH644 2.5 13.0 1.0
CG A:ASN83 3.4 13.4 1.0
C A:PRO263 3.6 15.6 1.0
C A:THR261 3.6 13.7 1.0
ND2 A:ASN83 3.8 14.2 1.0
C A:TYR262 4.2 13.6 1.0
CB A:THR261 4.3 13.8 1.0
N A:PRO263 4.3 13.2 1.0
CA A:TYR264 4.4 14.0 1.0
N A:TYR264 4.4 15.4 1.0
O A:SER84 4.4 12.5 1.0
OG1 A:THR261 4.4 13.6 1.0
N A:TYR262 4.5 12.7 1.0
O A:TYR262 4.5 13.3 1.0
CA A:TYR262 4.5 12.6 1.0
O2A A:HEC402 4.5 13.0 1.0
CA A:THR261 4.6 12.5 1.0
O A:HOH691 4.6 12.9 1.0
O1A A:HEC402 4.6 15.0 1.0
CA A:PRO263 4.6 14.1 1.0
O A:HOH566 4.6 14.7 1.0
CB A:ASN83 4.7 13.8 1.0
CD1 A:TYR264 4.7 14.7 1.0
CD A:PRO263 4.9 13.3 1.0
O A:HOH626 5.0 22.3 1.0
CGA A:HEC402 5.0 12.2 1.0

Calcium binding site 2 out of 2 in 7zs8

Go back to Calcium Binding Sites List in 7zs8
Calcium binding site 2 out of 2 in the Mixed-Valence, Active Form, of Cytochrome C Peroxidase From Obligate Human Pathogenic Bacterium Neisseria Gonorrhoeae at 1.4 Angstrom Resolution


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Mixed-Valence, Active Form, of Cytochrome C Peroxidase From Obligate Human Pathogenic Bacterium Neisseria Gonorrhoeae at 1.4 Angstrom Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca403

b:10.4
occ:1.00
 OD1 B:ASN83 2.3 11.2 1.0
O B:THR261 2.4 10.1 1.0
O B:HOH625 2.4 10.8 1.0
O B:HOH619 2.4 11.8 1.0
O B:PRO263 2.4 11.1 1.0
O B:HOH537 2.4 10.9 1.0
O B:HOH667 2.5 10.2 1.0
CG B:ASN83 3.4 9.9 1.0
C B:PRO263 3.6 9.4 1.0
C B:THR261 3.6 9.9 1.0
ND2 B:ASN83 3.8 11.1 1.0
C B:TYR262 4.2 10.7 1.0
CB B:THR261 4.3 9.4 1.0
N B:PRO263 4.3 10.2 1.0
CA B:TYR264 4.4 11.0 1.0
OG1 B:THR261 4.4 9.2 1.0
N B:TYR264 4.4 10.7 1.0
O B:SER84 4.4 11.0 1.0
O B:TYR262 4.5 10.4 1.0
N B:TYR262 4.5 11.4 1.0
CA B:TYR262 4.5 11.2 1.0
O B:HOH706 4.5 10.9 1.0
CA B:THR261 4.5 9.8 1.0
O2A B:HEC402 4.6 12.3 1.0
O B:HOH642 4.6 10.9 1.0
CA B:PRO263 4.6 10.8 1.0
CB B:ASN83 4.6 10.6 1.0
O1A B:HEC402 4.7 10.8 1.0
CD1 B:TYR264 4.7 10.3 1.0
O B:HOH586 4.8 21.4 1.0
CD B:PRO263 4.9 12.1 1.0

Reference:

C.S.Nobrega, A.L.Carvalho, M.J.Romao, S.R.Pauleta. Structural Characterization of Neisseria Gonorrhoeae Bacterial Peroxidase - Insights Into the Catalytic Cycle of Bacterial Peroxidases Int J Mol Sci 2023.
ISSN: ESSN 1422-0067
DOI: 10.3390/IJMS24076246
Page generated: Fri Jul 19 06:37:09 2024

Last articles

Zn in 9J0N
Zn in 9J0O
Zn in 9J0P
Zn in 9FJX
Zn in 9EKB
Zn in 9C0F
Zn in 9CAH
Zn in 9CH0
Zn in 9CH3
Zn in 9CH1
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy