Sodium in PDB 4tlh: Monoclinic Crystal Structure of Eutl From Clostridium Perfringens

The structure of Monoclinic Crystal Structure of Eutl From Clostridium Perfringens, PDB code: 4tlh was solved by M.C.Thompson, T.O.Yeates, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	33.43 / 1.70
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	118.440, 66.030, 79.380, 90.00, 108.27, 90.00
R / Rfree (%)	16.3 / 19.5

The structure of Monoclinic Crystal Structure of Eutl From Clostridium Perfringens also contains other interesting chemical elements:

Chlorine

(Cl)

1 atom

The binding sites of Sodium atom in the Monoclinic Crystal Structure of Eutl From Clostridium Perfringens (pdb code 4tlh). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 2 binding sites of Sodium where determined in the Monoclinic Crystal Structure of Eutl From Clostridium Perfringens, PDB code: 4tlh:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in the Monoclinic Crystal Structure of Eutl From Clostridium Perfringens


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Monoclinic Crystal Structure of Eutl From Clostridium Perfringens within 5.0Å range: probe atom residue distance (Å) B Occ A:Na301 b:16.5 occ:1.00 O B:HOH417 2.4 38.0 1.0 OD1 B:ASN74 2.4 20.9 1.0 OD1 A:ASN74 2.4 22.2 1.0 OD1 C:ASN74 2.5 20.2 1.0 O C:HOH413 2.5 47.8 1.0 O A:HOH487 2.5 33.5 1.0 CG B:ASN74 3.5 18.2 1.0 CG A:ASN74 3.5 20.1 1.0 CG C:ASN74 3.5 16.9 1.0 O C:HOH421 3.6 32.2 1.0 O B:HOH418 3.9 31.1 1.0 O C:HOH423 4.2 40.4 1.0 CB B:ASN74 4.2 15.9 1.0 CB A:ASN74 4.3 17.9 1.0 O C:HOH453 4.3 41.1 1.0 CB C:ASN74 4.3 15.4 1.0 O A:HOH538 4.3 38.3 1.0 ND2 A:ASN74 4.4 18.6 1.0 ND2 B:ASN74 4.4 18.5 1.0 ND2 C:ASN74 4.5 15.3 1.0 CA A:ASN74 4.5 17.6 1.0 CA B:ASN74 4.6 14.5 1.0 CA C:ASN74 4.6 17.1 1.0

Sodium binding site 2 out of 2 in the Monoclinic Crystal Structure of Eutl From Clostridium Perfringens


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Monoclinic Crystal Structure of Eutl From Clostridium Perfringens within 5.0Å range: probe atom residue distance (Å) B Occ A:Na302 b:30.9 occ:1.00 O A:GLU117 2.3 22.3 1.0 O A:HOH427 2.4 27.9 1.0 O A:HOH410 2.4 20.0 1.0 C A:GLU117 3.4 21.1 1.0 CA A:ASP118 3.8 23.1 1.0 N A:MET1 4.0 24.4 1.0 N A:ASP118 4.1 20.9 1.0 CA A:GLU117 4.5 21.2 1.0 C A:ASP118 4.6 19.9 1.0 OE1 A:GLU117 4.7 35.2 1.0 CA A:MET1 4.7 24.7 1.0 OD2 A:ASP119 4.8 27.5 1.0 CB A:ASP118 4.8 29.5 1.0 CB A:GLU117 5.0 24.6 1.0

M.C.Thompson, D.Cascio, T.O.Yeates. Microfocus Diffraction From Different Regions of A Protein Crystal: Structural Variations and Unit-Cell Polymorphism Acta Crystallogr.,Sect.D 2018.
ISSN: ESSN 1399-0047
DOI: 10.1107/S2059798318003479