Sodium in PDB 5sw4: Crystal Structure of Native Catalase-Peroxidase Katg at PH8.0

All present enzymatic activity of Crystal Structure of Native Catalase-Peroxidase Katg at PH8.0:
1.11.1.21;

The structure of Crystal Structure of Native Catalase-Peroxidase Katg at PH8.0, PDB code: 5sw4 was solved by P.C.Loewen, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	20.00 / 1.90
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	100.778, 115.981, 174.844, 90.00, 90.00, 90.00
R / Rfree (%)	13.9 / 17.1

The structure of Crystal Structure of Native Catalase-Peroxidase Katg at PH8.0 also contains other interesting chemical elements:

Iron

(Fe)

2 atoms

The binding sites of Sodium atom in the Crystal Structure of Native Catalase-Peroxidase Katg at PH8.0 (pdb code 5sw4). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 2 binding sites of Sodium where determined in the Crystal Structure of Native Catalase-Peroxidase Katg at PH8.0, PDB code: 5sw4:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in the Crystal Structure of Native Catalase-Peroxidase Katg at PH8.0


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Crystal Structure of Native Catalase-Peroxidase Katg at PH8.0 within 5.0Å range: probe atom residue distance (Å) B Occ A:Na802 b:17.3 occ:1.00 O A:GLY124 2.3 14.8 1.0 O A:HOH1032 2.3 19.4 1.0 O A:SER494 2.3 17.3 1.0 O A:GLY122 2.4 16.5 1.0 O A:HOH930 2.4 20.3 1.0 C A:SER494 3.2 15.7 1.0 C A:GLY124 3.4 14.6 1.0 C A:GLY122 3.5 16.6 1.0 N A:GLY124 3.5 16.0 1.0 C A:ARG123 3.6 15.4 1.0 CA A:ARG123 3.6 16.0 1.0 O A:HOH1164 3.9 19.8 1.0 CA A:SER494 4.0 15.7 1.0 CA A:GLY124 4.0 16.6 1.0 N A:ARG123 4.0 15.7 1.0 O A:HOH970 4.0 28.8 1.0 OD2 A:ASP427 4.0 16.5 1.0 O A:ARG123 4.1 13.5 1.0 N A:ASP495 4.1 14.5 1.0 CB A:ASP427 4.1 18.4 1.0 CB A:SER494 4.2 15.5 1.0 CA A:ASP495 4.4 14.8 1.0 N A:GLY125 4.5 14.6 1.0 CB A:ASP495 4.5 16.1 1.0 OE2 A:GLU128 4.6 32.4 1.0 CG A:ASP427 4.6 18.8 1.0 CD1 A:TYR117 4.6 17.9 1.0 OE2 A:GLU198 4.8 31.1 1.0 CA A:GLY122 4.8 15.8 1.0 CE1 A:TYR117 4.9 18.9 1.0 CB A:ARG123 4.9 16.6 1.0 CA A:GLY125 4.9 15.0 1.0

Sodium binding site 2 out of 2 in the Crystal Structure of Native Catalase-Peroxidase Katg at PH8.0


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Crystal Structure of Native Catalase-Peroxidase Katg at PH8.0 within 5.0Å range: probe atom residue distance (Å) B Occ B:Na802 b:16.1 occ:1.00 O B:HOH1136 2.3 17.9 1.0 O B:GLY122 2.3 14.6 1.0 O B:GLY124 2.3 13.5 1.0 O B:HOH1054 2.4 21.7 1.0 O B:SER494 2.4 14.9 1.0 C B:SER494 3.2 15.4 1.0 C B:GLY122 3.4 14.8 1.0 C B:GLY124 3.5 13.9 1.0 N B:GLY124 3.6 14.4 1.0 C B:ARG123 3.6 14.9 1.0 CA B:ARG123 3.6 14.4 1.0 CA B:SER494 4.0 14.9 1.0 O B:HOH1290 4.0 17.0 1.0 N B:ARG123 4.0 14.4 1.0 CA B:GLY124 4.1 14.1 1.0 O B:HOH1064 4.2 25.6 1.0 O B:ARG123 4.2 13.1 1.0 N B:ASP495 4.2 14.8 1.0 CB B:SER494 4.2 14.9 1.0 OD2 B:ASP427 4.2 20.8 1.0 CB B:ASP427 4.2 18.2 1.0 CA B:ASP495 4.4 14.1 1.0 CB B:ASP495 4.5 15.1 1.0 OE2 B:GLU128 4.5 34.5 1.0 CD1 B:TYR117 4.6 16.1 1.0 N B:GLY125 4.6 13.2 1.0 CG B:ASP427 4.7 19.3 1.0 CA B:GLY122 4.7 14.5 1.0 OE2 B:GLU198 4.8 23.2 1.0 CE1 B:TYR117 4.9 15.8 1.0 CB B:ARG123 4.9 14.6 1.0 CA B:GLY125 5.0 13.5 1.0 OG B:SER494 5.0 15.0 1.0

X.Carpena, B.Wiseman, T.Deemagarn, R.Singh, J.Switala, A.Ivancich, I.Fita, P.C.Loewen. A Molecular Switch and Electronic Circuit Modulate Catalase Activity in Catalase-Peroxidases. Embo Rep. V. 6 1156 2005.
ISSN: ISSN 1469-221X
PubMed: 16211084