Sodium in PDB 3svi: Structure of the Pto-Binding Domain of Hoppmal Generated By Limited Thermolysin Digestion

The structure of Structure of the Pto-Binding Domain of Hoppmal Generated By Limited Thermolysin Digestion, PDB code: 3svi was solved by A.U.Singer, A.Stein, X.Xu, H.Cui, A.Joachimiak, A.M.Edwards, A.Savchenko, Midwest Center For Structural Genomics (Mcsg), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	25.62 / 1.80
Space group	P 41 21 2
Cell size a, b, c (Å), α, β, γ (°)	57.277, 57.277, 55.658, 90.00, 90.00, 90.00
R / Rfree (%)	18.6 / 21.8

The structure of Structure of the Pto-Binding Domain of Hoppmal Generated By Limited Thermolysin Digestion also contains other interesting chemical elements:

Chlorine

(Cl)

4 atoms

The binding sites of Sodium atom in the Structure of the Pto-Binding Domain of Hoppmal Generated By Limited Thermolysin Digestion (pdb code 3svi). 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 Structure of the Pto-Binding Domain of Hoppmal Generated By Limited Thermolysin Digestion, PDB code: 3svi:

Sodium binding site 1 out of 1 in the Structure of the Pto-Binding Domain of Hoppmal Generated By Limited Thermolysin Digestion


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Structure of the Pto-Binding Domain of Hoppmal Generated By Limited Thermolysin Digestion within 5.0Å range: probe atom residue distance (Å) B Occ A:Na233 b:30.2 occ:1.00 O A:HIS189 2.8 15.1 1.0 O A:HOH132 2.9 31.9 1.0 O A:HOH131 3.1 29.2 1.0 O A:HOH122 3.1 26.5 1.0 CD1 A:PHE190 3.6 10.8 1.0 O A:HOH74 3.7 24.0 1.0 CD2 A:LEU204 3.8 12.0 1.0 C A:HIS189 4.0 11.5 1.0 CA A:PHE190 4.0 11.1 1.0 CE1 A:PHE190 4.1 11.4 1.0 O A:HOH237 4.2 13.4 1.0 CG A:PHE190 4.3 12.7 1.0 CD A:PRO191 4.4 13.5 1.0 N A:PHE190 4.5 10.3 1.0 CB A:LEU204 4.6 13.6 1.0 CB A:PHE190 4.6 13.9 1.0 CG A:LEU204 4.7 12.3 1.0 O A:HOH16 4.7 20.8 1.0 O A:HOH121 4.7 17.5 1.0

A.U.Singer, B.Wu, A.Yee, S.Houliston, X.Xu, H.Cui, T.Skarina, M.Garcia, A.Semesi, C.H.Arrowsmith, A.Savchenko. Structural Analysis of Hoppmal Reveals the Presence of A Second Adaptor Domain Common to the Hopab Family of Pseudomonas Syringae Type III Effectors. Biochemistry V. 51 1 2012.
ISSN: ISSN 0006-2960
PubMed: 22191472
DOI: 10.1021/BI2013883