Sodium in PDB 2xhg: Crystal Structure of the Epimerization Domain From the Initiation Module of Tyrocidine Biosynthesis

The structure of Crystal Structure of the Epimerization Domain From the Initiation Module of Tyrocidine Biosynthesis, PDB code: 2xhg was solved by S.-A.Samel, A.Heine, M.A.Marahiel, L.-O.Essen, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	25.00 / 1.50
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	47.710, 74.590, 124.750, 90.00, 90.00, 90.00
R / Rfree (%)	15.958 / 17.94

The binding sites of Sodium atom in the Crystal Structure of the Epimerization Domain From the Initiation Module of Tyrocidine Biosynthesis (pdb code 2xhg). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total only one binding site of Sodium was determined in the Crystal Structure of the Epimerization Domain From the Initiation Module of Tyrocidine Biosynthesis, PDB code: 2xhg:

Sodium binding site 1 out of 1 in the Crystal Structure of the Epimerization Domain From the Initiation Module of Tyrocidine Biosynthesis


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 the Epimerization Domain From the Initiation Module of Tyrocidine Biosynthesis within 5.0Å range: probe atom residue distance (Å) B Occ A:Na1469 b:64.5 occ:1.00 O A:HOH2368 2.0 15.4 1.0 O A:HOH2283 2.1 24.3 1.0 O A:HOH2370 2.2 29.8 1.0 O A:HOH2281 2.7 35.2 1.0 O A:HOH2282 3.4 37.5 1.0 O A:GLU285 3.5 16.6 1.0 O A:HOH2322 3.7 20.0 1.0 ND2 A:ASN260 4.0 19.8 0.5 O A:PHE367 4.2 16.4 1.0 OD1 A:ASN368 4.3 33.2 1.0 N A:GLU285 4.3 13.8 1.0 N A:TYR369 4.3 16.7 1.0 CA A:ASN368 4.5 16.9 1.0 CB A:LEU284 4.5 15.1 1.0 OD1 A:ASN260 4.5 28.2 0.5 C A:GLU285 4.6 16.6 1.0 CG A:ASN260 4.6 20.1 0.5 O A:HOH2293 4.7 38.4 1.0 CD2 A:LEU284 4.7 19.4 1.0 OD1 A:ASN260 4.8 22.9 0.5 O A:TYR369 4.9 21.1 1.0 CG A:ASN368 4.9 29.6 1.0 C A:ASN368 5.0 17.8 1.0 CG A:LEU284 5.0 17.6 1.0 CA A:GLU285 5.0 15.3 1.0 CA A:LEU284 5.0 12.8 1.0

S.-A.Samel, P.Czodrowski, L.-O.Essen. Structure of the Epimerization Domain of Tyrocidine Synthetase A Acta Crystallogr.,Sect.D V. 70 1442 2014.
ISSN: ISSN 0907-4449
PubMed: 24816112
DOI: 10.1107/S1399004714004398