Sodium in PDB 3lzx: Crystal Structure of Ferredoxin-Nadp+ Oxidoreductase From Bacillus Subtilis (Form II)

All present enzymatic activity of Crystal Structure of Ferredoxin-Nadp+ Oxidoreductase From Bacillus Subtilis (Form II):
1.18.1.2;

The structure of Crystal Structure of Ferredoxin-Nadp+ Oxidoreductase From Bacillus Subtilis (Form II), PDB code: 3lzx was solved by H.Komori, D.Seo, T.Sakurai, Y.Higuchi, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	26.85 / 1.90
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	207.466, 64.850, 61.116, 90.00, 105.82, 90.00
R / Rfree (%)	18.1 / 21.1

The binding sites of Sodium atom in the Crystal Structure of Ferredoxin-Nadp+ Oxidoreductase From Bacillus Subtilis (Form II) (pdb code 3lzx). 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 Ferredoxin-Nadp+ Oxidoreductase From Bacillus Subtilis (Form II), PDB code: 3lzx:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in the Crystal Structure of Ferredoxin-Nadp+ Oxidoreductase From Bacillus Subtilis (Form II)


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 Ferredoxin-Nadp+ Oxidoreductase From Bacillus Subtilis (Form II) within 5.0Å range: probe atom residue distance (Å) B Occ A:Na3001 b:19.0 occ:1.00 O A:HOH614 2.2 18.5 1.0 O A:ASP285 2.3 14.4 1.0 OG A:SER266 2.3 12.8 1.0 O A:HOH346 2.5 14.6 1.0 O A:HOH440 2.5 20.7 1.0 CB A:SER266 3.4 15.1 1.0 C A:ASP285 3.5 13.9 1.0 O A:HOH578 4.0 30.7 1.0 OD1 A:ASN294 4.1 17.3 1.0 O A:CYS287 4.1 13.9 1.0 O A:HOH479 4.2 21.8 1.0 C A:ILE286 4.2 14.2 1.0 CA A:ILE286 4.3 13.7 1.0 ND2 A:ASN294 4.3 22.2 1.0 O A:HOH401 4.3 18.1 1.0 N A:ILE286 4.3 13.8 1.0 O A:ILE286 4.3 14.4 1.0 CA A:SER266 4.4 14.7 1.0 CA A:ASP285 4.4 13.5 1.0 CG A:ASN294 4.5 18.7 1.0 O A:GLY120 4.6 14.3 1.0 O A:ASN265 4.6 15.8 1.0 N A:CYS287 4.7 14.4 1.0 O A:LYS264 4.7 16.8 1.0 CB A:ASP285 4.7 14.0 1.0 OD1 A:ASN121 4.9 19.0 1.0 C A:CYS287 4.9 14.4 1.0

Sodium binding site 2 out of 2 in the Crystal Structure of Ferredoxin-Nadp+ Oxidoreductase From Bacillus Subtilis (Form II)


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 Ferredoxin-Nadp+ Oxidoreductase From Bacillus Subtilis (Form II) within 5.0Å range: probe atom residue distance (Å) B Occ B:Na3002 b:24.1 occ:1.00 O B:ASP285 2.2 19.9 1.0 O B:HOH550 2.3 28.9 1.0 OG B:SER266 2.3 26.8 1.0 O B:HOH349 2.4 16.2 1.0 O B:HOH353 2.8 20.8 1.0 CB B:SER266 3.4 27.9 1.0 C B:ASP285 3.5 19.7 1.0 O B:HOH553 3.8 44.3 1.0 O B:ILE286 4.1 20.9 1.0 OD1 B:ASN294 4.1 19.4 1.0 C B:ILE286 4.1 20.7 1.0 O B:CYS287 4.1 18.9 1.0 O B:ASN265 4.2 31.0 1.0 O B:HOH544 4.2 31.8 1.0 CA B:SER266 4.2 28.2 1.0 CA B:ILE286 4.2 20.3 1.0 N B:ILE286 4.3 20.2 1.0 ND2 B:ASN294 4.4 21.5 1.0 O B:HOH529 4.4 34.3 1.0 CA B:ASP285 4.5 19.5 1.0 CG B:ASN294 4.6 19.0 1.0 O B:HOH413 4.6 40.6 1.0 O B:GLY120 4.7 23.4 1.0 N B:CYS287 4.7 20.3 1.0 C B:ASN265 4.7 31.7 1.0 N B:SER266 4.8 29.9 1.0 C B:CYS287 4.8 19.5 1.0 CB B:ASP285 4.9 19.6 1.0 O B:LYS264 5.0 37.0 1.0

H.Komori, D.Seo, T.Sakurai, Y.Higuchi. Crystal Structure Analysis of Bacillus Subtilis Ferredoxin-Nadp(+) Oxidoreductase and the Structural Basis For Its Substrate Selectivity Protein Sci. V. 19 2279 2010.
ISSN: ISSN 0961-8368
PubMed: 20878669
DOI: 10.1002/PRO.508