Sodium in PDB 2f6p: Benm Effector Binding Domain- Semet Derivative

The structure of Benm Effector Binding Domain- Semet Derivative, PDB code: 2f6p was solved by T.Clark, S.Haddad, O.Ezezika, E.Neidle, C.Momany, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	58.93 / 2.00
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	65.090, 66.702, 117.849, 90.00, 90.00, 90.00
R / Rfree (%)	18.1 / 22.7

The binding sites of Sodium atom in the Benm Effector Binding Domain- Semet Derivative (pdb code 2f6p). 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 Benm Effector Binding Domain- Semet Derivative, PDB code: 2f6p:

Sodium binding site 1 out of 1 in the Benm Effector Binding Domain- Semet Derivative


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Benm Effector Binding Domain- Semet Derivative within 5.0Å range: probe atom residue distance (Å) B Occ B:Na603 b:63.9 occ:1.00 O B:LEU119 2.5 40.3 1.0 O B:HOH793 2.6 57.5 1.0 O B:HOH665 2.7 50.2 1.0 O B:HIS116 3.0 37.4 1.0 C B:LEU119 3.7 39.4 1.0 O B:PRO117 3.8 38.6 1.0 O B:HOH829 4.0 57.4 1.0 C B:PRO117 4.0 38.6 1.0 CA B:PRO117 4.1 38.1 1.0 C B:HIS116 4.1 37.0 1.0 CD1 B:ILE121 4.1 38.4 1.0 N B:LEU119 4.1 39.8 1.0 CA B:LEU119 4.4 39.8 1.0 CG1 B:ILE121 4.5 35.0 1.0 O B:ARG113 4.5 31.8 1.0 CG B:ARG113 4.5 35.7 1.0 N B:PRO117 4.6 37.6 1.0 N B:ARG120 4.7 38.5 1.0 O B:HOH681 4.7 38.3 1.0 CB B:ARG113 4.7 29.8 1.0 CA B:ARG113 4.8 29.0 1.0 N B:ILE121 4.8 33.6 1.0 N B:ASN118 4.8 39.2 1.0 C B:ASN118 4.8 40.0 1.0 CB B:LEU119 4.8 39.8 1.0 CA B:ARG120 4.9 37.3 1.0

O.C.Ezezika, S.Haddad, T.J.Clark, E.L.Neidle, C.Momany. Distinct Effector-Binding Sites Enable Synergistic Transcriptional Activation By Benm, A Lysr-Type Regulator. J.Mol.Biol. V. 367 616 2007.
ISSN: ISSN 0022-2836
PubMed: 17291527
DOI: 10.1016/J.JMB.2006.09.090