Sodium in PDB 3fgh: Human Mitochondrial Transcription Factor A Box B

The structure of Human Mitochondrial Transcription Factor A Box B, PDB code: 3fgh was solved by T.A.Gangelhoff, P.Mungalachetty, J.Nix, M.E.A.Churchill, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	28.00 / 1.35
Space group	C 2 2 21
Cell size a, b, c (Å), α, β, γ (°)	30.280, 99.350, 51.910, 90.00, 90.00, 90.00
R / Rfree (%)	18.8 / 21.4

The structure of Human Mitochondrial Transcription Factor A Box B also contains other interesting chemical elements:

Cadmium	(Cd)	2 atoms
Chlorine	(Cl)	2 atoms

The binding sites of Sodium atom in the Human Mitochondrial Transcription Factor A Box B (pdb code 3fgh). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 2 binding sites of Sodium where determined in the Human Mitochondrial Transcription Factor A Box B, PDB code: 3fgh:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in the Human Mitochondrial Transcription Factor A Box B


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Human Mitochondrial Transcription Factor A Box B within 5.0Å range: probe atom residue distance (Å) B Occ A:Na180 b:12.1 occ:1.00 OD1 A:ASP165 2.3 25.2 1.0 OD2 A:ASP165 2.3 20.5 1.0 O A:HOH52 2.4 65.2 1.0 O A:HOH53 2.4 0.8 1.0 CG A:ASP165 2.7 20.0 1.0 O A:HOH12 4.0 18.2 1.0 CB A:ASP165 4.2 14.8 1.0 NH2 A:ARG168 4.2 33.5 1.0 O A:HIS161 4.5 11.6 1.0 O A:HOH4 4.6 20.3 1.0 O A:HOH45 4.8 25.8 1.0

Sodium binding site 2 out of 2 in the Human Mitochondrial Transcription Factor A Box B


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Human Mitochondrial Transcription Factor A Box B within 5.0Å range: probe atom residue distance (Å) B Occ A:Na181 b:18.4 occ:1.00 OG A:SER153 3.0 12.2 1.0 N A:SER153 3.1 10.4 1.0 CB A:SER153 3.3 11.2 1.0 CB A:SER151 3.5 14.3 1.0 OG A:SER151 3.5 13.3 1.0 N A:ASP152 3.7 11.7 1.0 CA A:SER153 3.8 11.3 1.0 O A:HOH6 3.9 22.0 1.0 C A:ASP152 4.1 10.7 1.0 O A:HOH10 4.2 17.5 1.0 CA A:ASP152 4.3 11.6 1.0 C A:SER151 4.3 11.6 1.0 CB A:ASP152 4.3 12.1 1.0 CA A:SER151 4.4 13.2 1.0 C A:SER153 4.9 10.3 1.0 N A:GLU154 4.9 11.6 1.0

T.A.Gangelhoff, P.S.Mungalachetty, J.C.Nix, M.E.Churchill. Structural Analysis and Dna Binding of the Hmg Domains of the Human Mitochondrial Transcription Factor A Nucleic Acids Res. V. 37 3153 2009.
ISSN: ISSN 0305-1048
PubMed: 19304746
DOI: 10.1093/NAR/GKP157