Sodium in PDB 3tkj: Crystal Structure of Human Asparaginase-Like Protein 1 THR168ALA

All present enzymatic activity of Crystal Structure of Human Asparaginase-Like Protein 1 THR168ALA:
3.5.1.1;

The structure of Crystal Structure of Human Asparaginase-Like Protein 1 THR168ALA, PDB code: 3tkj was solved by W.Z.Li, S.D.Yogesha, J.Liu, Y.Zhang, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	47.62 / 2.30
Space group	C 2 2 21
Cell size a, b, c (Å), α, β, γ (°)	111.682, 111.371, 119.500, 90.00, 90.00, 90.00
R / Rfree (%)	16.8 / 19.3

The binding sites of Sodium atom in the Crystal Structure of Human Asparaginase-Like Protein 1 THR168ALA (pdb code 3tkj). 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 Human Asparaginase-Like Protein 1 THR168ALA, PDB code: 3tkj:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in the Crystal Structure of Human Asparaginase-Like Protein 1 THR168ALA


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 Human Asparaginase-Like Protein 1 THR168ALA within 5.0Å range: probe atom residue distance (Å) B Occ A:Na401 b:32.6 occ:1.00 O A:CYS65 2.2 37.3 1.0 O A:ASP58 2.2 35.2 1.0 O A:ALA63 2.3 33.1 1.0 O A:LEU55 2.5 34.2 1.0 O A:GLU56 2.6 34.9 1.0 O A:PHE61 2.7 32.6 1.0 C A:GLU56 3.2 33.9 1.0 C A:ASP58 3.2 35.2 1.0 C A:CYS65 3.4 38.8 1.0 C A:ALA63 3.5 32.6 1.0 CA A:GLU56 3.5 28.6 1.0 C A:LEU55 3.6 33.1 1.0 C A:PHE61 3.7 33.6 1.0 N A:ASP58 3.8 30.4 1.0 N A:CYS65 3.9 35.1 1.0 N A:GLU56 4.0 29.6 1.0 CA A:ASP58 4.0 30.6 1.0 N A:ALA63 4.1 28.8 1.0 N A:PHE61 4.1 31.5 1.0 CB A:PHE61 4.1 29.5 1.0 CA A:PHE61 4.1 29.5 1.0 N A:PRO59 4.2 32.2 1.0 N A:ASP57 4.2 30.2 1.0 CA A:CYS65 4.2 36.1 1.0 N A:GLY66 4.3 35.4 1.0 C A:GLY64 4.3 36.9 1.0 CA A:PRO59 4.3 32.3 1.0 CA A:ALA63 4.3 27.5 1.0 C A:ASP57 4.3 34.5 1.0 CA A:GLY66 4.4 35.0 1.0 N A:GLY64 4.5 28.9 1.0 CA A:GLY64 4.6 29.1 1.0 CB A:ASP58 4.6 31.1 1.0 CB A:ALA63 4.6 27.1 1.0 C A:PRO59 4.6 38.1 1.0 CB A:CYS65 4.7 37.6 1.0 O A:GLY64 4.7 37.2 1.0 CA A:ASP57 4.7 30.8 1.0 N A:ASN62 4.8 30.6 1.0 CA A:LEU55 4.9 27.5 1.0 C A:GLY66 4.9 38.2 1.0 CB A:GLU56 4.9 28.5 1.0 O A:ASP57 4.9 34.8 1.0 N A:GLU60 5.0 33.9 1.0

Sodium binding site 2 out of 2 in the Crystal Structure of Human Asparaginase-Like Protein 1 THR168ALA


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 Human Asparaginase-Like Protein 1 THR168ALA within 5.0Å range: probe atom residue distance (Å) B Occ B:Na401 b:35.0 occ:1.00 O B:CYS65 2.2 36.2 1.0 O B:ALA63 2.2 31.6 1.0 O B:ASP58 2.3 34.4 1.0 O B:LEU55 2.5 33.2 1.0 O B:GLU56 2.6 32.3 1.0 O B:PHE61 2.7 31.8 1.0 C B:GLU56 3.2 32.9 1.0 C B:ASP58 3.3 36.1 1.0 C B:CYS65 3.3 37.7 1.0 C B:ALA63 3.4 32.5 1.0 CA B:GLU56 3.5 28.4 1.0 C B:LEU55 3.6 31.7 1.0 C B:PHE61 3.6 32.0 1.0 N B:ASP58 3.8 31.9 1.0 N B:CYS65 3.9 33.1 1.0 N B:ALA63 4.0 27.3 1.0 N B:GLU56 4.0 28.6 1.0 N B:PHE61 4.1 27.9 1.0 CB B:PHE61 4.1 27.5 1.0 CA B:PHE61 4.1 27.0 1.0 CA B:ASP58 4.1 31.9 1.0 CA B:CYS65 4.2 33.7 1.0 N B:ASP57 4.2 31.1 1.0 CA B:ALA63 4.2 26.8 1.0 C B:GLY64 4.2 36.2 1.0 N B:PRO59 4.2 34.6 1.0 N B:GLY66 4.2 34.1 1.0 CA B:PRO59 4.3 34.7 1.0 CA B:GLY66 4.4 32.9 1.0 C B:ASP57 4.4 35.6 1.0 N B:GLY64 4.4 30.6 1.0 CB B:ALA63 4.6 26.6 1.0 CA B:GLY64 4.6 31.1 1.0 C B:PRO59 4.7 38.5 1.0 O B:GLY64 4.7 35.5 1.0 CB B:ASP58 4.7 32.9 1.0 CB B:CYS65 4.7 34.4 1.0 N B:ASN62 4.7 29.2 1.0 CA B:ASP57 4.8 32.2 1.0 C B:GLY66 4.9 35.0 1.0 CB B:GLU56 4.9 29.4 1.0 CA B:LEU55 4.9 26.0 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