Sodium in PDB 5vfz: Integrase From Mycobacterium Phage Brujita

The structure of Integrase From Mycobacterium Phage Brujita, PDB code: 5vfz was solved by A.P.Vandemark, B.Lunt, G.F.Hatfull, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	21.70 / 1.85
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	133.213, 50.050, 60.679, 90.00, 115.34, 90.00
R / Rfree (%)	16.4 / 18.2

The binding sites of Sodium atom in the Integrase From Mycobacterium Phage Brujita (pdb code 5vfz). 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 Integrase From Mycobacterium Phage Brujita, PDB code: 5vfz:

Sodium binding site 1 out of 1 in the Integrase From Mycobacterium Phage Brujita


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Integrase From Mycobacterium Phage Brujita within 5.0Å range: probe atom residue distance (Å) B Occ A:Na402 b:53.2 occ:1.00 OE1 A:GLN97 2.4 54.2 1.0 O A:HOH530 2.5 38.6 1.0 O A:HOH568 2.6 37.2 1.0 HA A:TRP94 3.0 30.5 1.0 HB2 A:TRP94 3.3 30.6 1.0 CD A:GLN97 3.5 61.5 1.0 HD1 A:TRP94 3.5 31.6 1.0 HH2 A:TRP29 3.6 37.3 1.0 CA A:TRP94 3.7 25.4 1.0 HG A:LEU93 3.7 44.6 1.0 HD23 A:LEU93 3.9 43.1 1.0 HB2 A:GLN97 3.9 43.8 1.0 CB A:TRP94 3.9 25.5 1.0 N A:TRP94 4.0 25.9 1.0 CH2 A:TRP29 4.0 31.1 1.0 HE22 A:GLN97 4.1 82.3 1.0 H A:TRP94 4.2 31.1 1.0 O A:HOH574 4.2 32.6 1.0 NE2 A:GLN97 4.2 68.6 1.0 CD1 A:TRP94 4.3 26.3 1.0 HZ2 A:TRP29 4.3 34.9 1.0 O A:HOH649 4.4 39.0 1.0 CZ2 A:TRP29 4.4 29.1 1.0 C A:LEU93 4.4 30.9 1.0 HB3 A:LEU93 4.4 36.3 1.0 CG A:LEU93 4.5 37.2 1.0 CG A:GLN97 4.5 48.4 1.0 CD2 A:LEU93 4.5 35.9 1.0 CG A:TRP94 4.5 24.1 1.0 CB A:GLN97 4.6 36.5 1.0 O A:LEU93 4.6 30.1 1.0 HD21 A:LEU93 4.6 43.1 1.0 HB3 A:GLN97 4.7 43.8 1.0 HG3 A:GLN97 4.7 58.0 1.0 CZ3 A:TRP29 4.8 32.3 1.0 HB3 A:TRP94 4.8 30.6 1.0 O A:ALA90 4.8 29.2 1.0 HZ3 A:TRP29 4.9 38.7 1.0 CB A:LEU93 4.9 30.2 1.0

B.Lunt, A.P.Vandemark, G.F.Hatfull. Tbd To Be Published.