Sodium in PDB 3h8j: Native T4 Rnase H in the Absence of Divalent Metal Ions

All present enzymatic activity of Native T4 Rnase H in the Absence of Divalent Metal Ions:
3.1.26.4;

The structure of Native T4 Rnase H in the Absence of Divalent Metal Ions, PDB code: 3h8j was solved by S.J.Tomanicek, T.C.Mueser, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	19.25 / 1.80
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	36.257, 86.458, 57.796, 90.00, 92.04, 90.00
R / Rfree (%)	19.2 / 21.3

The binding sites of Sodium atom in the Native T4 Rnase H in the Absence of Divalent Metal Ions (pdb code 3h8j). 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 Native T4 Rnase H in the Absence of Divalent Metal Ions, PDB code: 3h8j:

Sodium binding site 1 out of 1 in the Native T4 Rnase H in the Absence of Divalent Metal Ions


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Native T4 Rnase H in the Absence of Divalent Metal Ions within 5.0Å range: probe atom residue distance (Å) B Occ A:Na306 b:23.1 occ:1.00 OH A:TYR278 2.7 14.8 1.0 O A:MET119 2.9 15.1 1.0 O A:TYR121 2.9 11.7 1.0 O A:LEU115 3.0 10.4 1.0 O A:LYS116 3.3 17.1 1.0 CD A:PRO281 3.3 23.3 1.0 CA A:LYS116 3.5 10.8 1.0 CG A:PRO281 3.5 19.8 1.0 CE1 A:TYR278 3.5 12.2 1.0 CZ A:TYR278 3.6 13.0 1.0 C A:LYS116 3.6 16.8 1.0 C A:LEU115 3.8 12.1 1.0 C A:MET119 4.0 11.8 1.0 C A:TYR121 4.0 14.3 1.0 N A:LYS116 4.1 11.7 1.0 CG2 A:VAL123 4.1 13.9 1.0 N A:TYR121 4.2 13.2 1.0 N A:MET119 4.5 13.0 1.0 O A:HOH577 4.6 23.5 1.0 CB A:LYS116 4.7 14.0 1.0 N A:ALA117 4.7 13.3 1.0 CA A:MET119 4.7 11.5 1.0 CA A:TYR121 4.7 11.9 1.0 N A:PRO281 4.7 21.8 1.0 O A:LYS279 4.8 16.2 1.0 N A:VAL123 4.8 9.1 1.0 CD1 A:LEU280 4.8 18.8 1.0 CD1 A:TYR278 4.9 14.9 1.0 CE2 A:TYR278 4.9 14.3 1.0 CB A:PRO281 4.9 19.5 1.0 CB A:VAL123 4.9 7.9 1.0 O A:HOH424 5.0 26.7 1.0 N A:PRO120 5.0 10.8 1.0

S.J.Tomanicek, J.M.Devos, T.C.Mueser. Additional Order Appears in the Absence of Metals in A Fen-1 Protein: Structural Analysis of Magnesium Binding to Bacteriophage T4 Rnaseh To Be Published.