Sodium in PDB 4p4p: Crystal Structure of Leishmania Infantum Polymerase Beta: Nick Complex

The structure of Crystal Structure of Leishmania Infantum Polymerase Beta: Nick Complex, PDB code: 4p4p was solved by E.Mejia, M.Burak, A.Alonso, V.Larraga, T.Kunkel, K.Bebenek, M.Garcia-Diaz, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	44.30 / 2.30
Space group	P 65 2 2
Cell size a, b, c (Å), α, β, γ (°)	106.497, 106.497, 159.609, 90.00, 90.00, 120.00
R / Rfree (%)	19.1 / 23.4

The binding sites of Sodium atom in the Crystal Structure of Leishmania Infantum Polymerase Beta: Nick Complex (pdb code 4p4p). 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 Leishmania Infantum Polymerase Beta: Nick Complex, PDB code: 4p4p:

Sodium binding site 1 out of 1 in the Crystal Structure of Leishmania Infantum Polymerase Beta: Nick Complex


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 Leishmania Infantum Polymerase Beta: Nick Complex within 5.0Å range: probe atom residue distance (Å) B Occ A:Na401 b:64.6 occ:1.00 O C:HOH117 2.2 91.0 1.0 O A:THR100 2.5 38.1 1.0 OP1 C:DA5 2.5 31.0 1.0 O A:HOH646 2.8 41.3 1.0 O A:VAL102 2.9 31.9 1.0 O A:PHE105 2.9 31.4 1.0 C A:THR100 3.4 36.8 1.0 P C:DA5 3.4 29.9 1.0 OP2 C:DA5 3.5 34.5 1.0 C A:VAL102 3.7 31.6 1.0 CA A:THR100 4.0 36.6 1.0 C A:PHE105 4.0 32.6 1.0 N A:VAL102 4.2 32.9 1.0 O C:HOH112 4.2 53.3 1.0 C A:GLN101 4.2 37.7 1.0 CA A:HIS103 4.3 31.1 1.0 N A:PHE105 4.3 30.9 1.0 N A:HIS103 4.3 30.3 1.0 N A:GLN101 4.3 39.7 1.0 CB A:THR100 4.3 38.3 1.0 N A:GLY104 4.5 27.1 1.0 O5' C:DA5 4.5 28.1 1.0 O A:GLN101 4.6 36.7 1.0 CA A:GLN101 4.6 40.1 1.0 O3' C:DT4 4.6 38.3 1.0 CA A:VAL102 4.6 32.8 1.0 CA A:PHE105 4.7 33.4 1.0 C A:HIS103 4.8 29.3 1.0

E.Mejia, M.Burak, A.Alonso, V.Larraga, T.A.Kunkel, K.Bebenek, M.Garcia-Diaz. Structures of the Leishmania Infantum Polymerase Beta. Dna Repair (Amst.) V. 18 1 2014.
ISSN: ISSN 1568-7856
PubMed: 24666693
DOI: 10.1016/J.DNAREP.2014.03.001