Sodium in PDB 4et0: Crystal Structure of Circularly Permuted Human Asparaginase-Like Protein 1

All present enzymatic activity of Crystal Structure of Circularly Permuted Human Asparaginase-Like Protein 1:
3.5.1.1;

The structure of Crystal Structure of Circularly Permuted Human Asparaginase-Like Protein 1, PDB code: 4et0 was solved by W.Z.Li, S.D.Yogesha, Y.Zhang, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	47.50 / 3.30
Space group	P 65 2 2
Cell size a, b, c (Å), α, β, γ (°)	108.638, 108.638, 275.144, 90.00, 90.00, 120.00
R / Rfree (%)	21.4 / 24.9

The binding sites of Sodium atom in the Crystal Structure of Circularly Permuted Human Asparaginase-Like Protein 1 (pdb code 4et0). 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 Circularly Permuted Human Asparaginase-Like Protein 1, PDB code: 4et0:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in the Crystal Structure of Circularly Permuted Human Asparaginase-Like Protein 1


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 Circularly Permuted Human Asparaginase-Like Protein 1 within 5.0Å range: probe atom residue distance (Å) B Occ A:Na401 b:49.3 occ:1.00 O A:ASP58 2.2 0.4 1.0 O A:LEU55 2.2 0.9 1.0 O A:ALA63 2.5 0.1 1.0 O A:CYS65 2.5 0.0 1.0 O A:GLU56 2.7 0.8 1.0 O A:PHE61 2.9 0.4 1.0 C A:GLU56 3.2 0.7 1.0 C A:ASP58 3.2 0.0 1.0 C A:LEU55 3.3 0.3 1.0 CA A:GLU56 3.4 0.9 1.0 C A:CYS65 3.6 0.1 1.0 C A:ALA63 3.6 0.2 1.0 N A:ASP58 3.7 0.3 1.0 C A:PHE61 3.7 0.5 1.0 N A:GLU56 3.8 0.2 1.0 CB A:PHE61 3.9 0.6 1.0 CA A:ASP58 3.9 0.2 1.0 CA A:PHE61 4.0 0.9 1.0 N A:PHE61 4.0 0.5 1.0 N A:ASP57 4.1 0.3 1.0 N A:CYS65 4.1 0.7 1.0 N A:ALA63 4.2 0.3 1.0 N A:PRO59 4.2 0.9 1.0 C A:ASP57 4.2 1.0 1.0 CA A:PRO59 4.4 0.9 1.0 CA A:ALA63 4.4 0.2 1.0 CA A:CYS65 4.4 0.9 1.0 CB A:ASP58 4.4 0.3 1.0 C A:GLY64 4.5 0.8 1.0 N A:GLY66 4.5 0.3 1.0 CA A:LEU55 4.6 0.4 1.0 CB A:ALA63 4.6 0.3 1.0 N A:GLY64 4.6 0.2 1.0 CA A:GLY66 4.6 0.7 1.0 C A:PRO59 4.7 0.9 1.0 CA A:ASP57 4.7 1.0 1.0 CA A:GLY64 4.8 0.8 1.0 N A:ASN62 4.8 0.5 1.0 CB A:CYS65 4.9 0.8 1.0 CB A:GLU56 4.9 0.0 1.0 O A:ASP57 4.9 0.1 1.0 O A:GLY64 5.0 0.3 1.0 N A:GLU60 5.0 0.2 1.0

Sodium binding site 2 out of 2 in the Crystal Structure of Circularly Permuted Human Asparaginase-Like Protein 1


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 Circularly Permuted Human Asparaginase-Like Protein 1 within 5.0Å range: probe atom residue distance (Å) B Occ B:Na401 b:25.5 occ:1.00 O B:ASP58 2.2 0.4 1.0 O B:LEU55 2.4 0.2 1.0 O B:CYS65 2.4 0.4 1.0 O B:ALA63 2.5 0.1 1.0 O B:PHE61 2.6 0.6 1.0 O B:GLU56 3.0 1.0 1.0 C B:ASP58 3.3 0.3 1.0 C B:PHE61 3.4 0.4 1.0 C B:GLU56 3.4 0.4 1.0 C B:LEU55 3.5 0.7 1.0 C B:CYS65 3.5 0.7 1.0 C B:ALA63 3.7 0.9 1.0 CA B:GLU56 3.7 0.1 1.0 CB B:PHE61 3.7 0.9 1.0 CA B:PHE61 3.8 0.1 1.0 N B:PHE61 3.8 0.3 1.0 N B:ASP58 3.9 0.8 1.0 N B:GLU56 4.0 0.3 1.0 N B:ALA63 4.0 0.3 1.0 CA B:ASP58 4.1 0.3 1.0 N B:PRO59 4.2 0.2 1.0 N B:CYS65 4.2 0.6 1.0 CA B:PRO59 4.3 0.2 1.0 CA B:ALA63 4.4 0.3 1.0 N B:ASP57 4.4 0.3 1.0 N B:GLY66 4.4 0.9 1.0 CA B:GLY66 4.4 0.1 1.0 CA B:CYS65 4.4 0.2 1.0 C B:ASP57 4.5 0.5 1.0 C B:PRO59 4.5 0.7 1.0 N B:ASN62 4.6 0.9 1.0 C B:GLY64 4.6 0.6 1.0 CB B:ASP58 4.6 0.7 1.0 CB B:ALA63 4.6 1.0 1.0 N B:GLY64 4.7 0.8 1.0 CA B:LEU55 4.8 0.8 1.0 O B:PRO59 4.8 0.3 1.0 N B:GLU60 4.8 0.6 1.0 CG B:PHE61 4.9 0.0 1.0 CA B:GLY64 4.9 0.4 1.0 C B:GLY66 4.9 0.6 1.0 CB B:CYS65 5.0 0.8 1.0 CA B:ASP57 5.0 1.0 1.0 O B:GLY64 5.0 0.1 1.0

W.Li, J.R.Cantor, S.D.Yogesha, S.Yang, L.Chantranupong, J.Q.Liu, G.Agnello, G.Georgiou, E.M.Stone, Y.Zhang. Uncoupling Intramolecular Processing and Substrate Hydrolysis in the N-Terminal Nucleophile Hydrolase HASRGL1 By Circular Permutation. Acs Chem.Biol. V. 7 1840 2012.
ISSN: ISSN 1554-8929
PubMed: 22891768
DOI: 10.1021/CB300232N