Sodium in PDB 3fh4: Crystal Structure of Recombinant Vibrio Proteolyticus Aminopeptidase

All present enzymatic activity of Crystal Structure of Recombinant Vibrio Proteolyticus Aminopeptidase:
3.4.11.10;

The structure of Crystal Structure of Recombinant Vibrio Proteolyticus Aminopeptidase, PDB code: 3fh4 was solved by W.Yong, J.-J.P.Kim, M.Hartley, B.Bennett, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	26.03 / 1.95
Space group	P 61 2 2
Cell size a, b, c (Å), α, β, γ (°)	108.397, 108.397, 93.529, 90.00, 90.00, 120.00
R / Rfree (%)	19.1 / 22.8

The structure of Crystal Structure of Recombinant Vibrio Proteolyticus Aminopeptidase also contains other interesting chemical elements:

Zinc

(Zn)

2 atoms

The binding sites of Sodium atom in the Crystal Structure of Recombinant Vibrio Proteolyticus Aminopeptidase (pdb code 3fh4). 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 Recombinant Vibrio Proteolyticus Aminopeptidase, PDB code: 3fh4:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in the Crystal Structure of Recombinant Vibrio Proteolyticus Aminopeptidase


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 Recombinant Vibrio Proteolyticus Aminopeptidase within 5.0Å range: probe atom residue distance (Å) B Occ A:Na303 b:11.1 occ:1.00 N A:ASN74 3.2 13.3 1.0 ND2 A:ASN74 3.6 16.6 1.0 CA A:TYR73 3.6 13.4 1.0 CA A:THR38 3.7 16.1 1.0 CG A:ASN74 3.7 15.2 1.0 CB A:ASN74 3.8 13.7 1.0 CG2 A:THR38 3.9 16.0 1.0 O A:THR38 3.9 16.8 1.0 O A:HOH350 3.9 19.7 1.0 C A:TYR73 3.9 13.2 1.0 CB A:THR38 3.9 16.2 1.0 CB A:TYR73 4.1 12.9 1.0 C A:THR38 4.1 16.4 1.0 O A:HOH309 4.1 10.7 1.0 CA A:ASN74 4.1 13.4 1.0 OD1 A:ASN74 4.3 16.8 1.0 O A:TYR37 4.3 14.4 1.0 O A:GLY72 4.6 14.4 1.0 N A:THR38 4.8 15.2 1.0 N A:TYR73 4.8 13.8 1.0

Sodium binding site 2 out of 2 in the Crystal Structure of Recombinant Vibrio Proteolyticus Aminopeptidase


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 Recombinant Vibrio Proteolyticus Aminopeptidase within 5.0Å range: probe atom residue distance (Å) B Occ A:Na304 b:11.1 occ:1.00 OG A:SER215 2.9 17.1 1.0 N A:SER215 3.4 15.5 1.0 C A:LEU213 3.5 14.2 1.0 CA A:LEU213 3.6 14.0 1.0 CB A:SER215 3.6 16.1 1.0 N A:PRO214 3.7 14.6 1.0 CD A:PRO214 3.9 14.5 1.0 O A:LEU213 3.9 14.0 1.0 CA A:SER215 4.0 15.7 1.0 CB A:LEU213 4.2 13.8 1.0 N A:LEU216 4.3 14.9 1.0 CD2 A:LEU213 4.3 13.8 1.0 CG A:LEU216 4.3 13.4 1.0 C A:PRO214 4.4 15.4 1.0 CG A:PRO214 4.5 15.1 1.0 C A:SER215 4.5 15.3 1.0 O A:TYR212 4.6 13.8 1.0 CA A:PRO214 4.6 15.0 1.0 N A:LEU213 4.8 13.9 1.0 CD2 A:LEU216 4.8 12.8 1.0 CG A:LEU213 4.9 14.2 1.0

M.Hartley, B.Bennett. Heterologous Expression and Purification of Vibrio Proteolyticus (Aeromonas Proteolytica) Aminopeptidase: A Rapid Protocol Protein Expr.Purif. V. 66 91 2009.
ISSN: ISSN 1046-5928
PubMed: 19233285
DOI: 10.1016/J.PEP.2009.02.011