Zinc in PDB 7q3z: Dna/Rna Binding Protein

The structure of Dna/Rna Binding Protein, PDB code: 7q3z was solved by E.Huber, K.Lammens, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	45.90 / 1.85
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	49.88, 64.04, 104.58, 90, 93, 90
R / Rfree (%)	18.8 / 21.3

The structure of Dna/Rna Binding Protein also contains other interesting chemical elements:

Sodium

(Na)

2 atoms

The binding sites of Zinc atom in the Dna/Rna Binding Protein (pdb code 7q3z). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Dna/Rna Binding Protein, PDB code: 7q3z:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Dna/Rna Binding Protein


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Dna/Rna Binding Protein within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn401 b:30.9 occ:0.83 ND1 B:HIS266 1.9 25.6 1.0 SG B:CYS303 2.3 38.8 1.0 SG B:CYS268 2.3 38.0 1.0 SG B:CYS302 2.4 36.9 1.0 CE1 B:HIS266 2.7 37.9 1.0 CG B:HIS266 3.0 38.1 1.0 CB B:CYS303 3.3 35.7 1.0 CB B:CYS268 3.4 35.6 1.0 CB B:CYS302 3.5 27.6 1.0 CB B:HIS266 3.5 43.9 1.0 N B:CYS303 3.8 28.5 1.0 CA B:HIS266 3.9 39.5 1.0 NE2 B:HIS266 3.9 33.3 1.0 CD2 B:HIS266 4.0 34.5 1.0 N B:CYS268 4.1 47.7 1.0 C B:CYS302 4.2 28.9 1.0 CA B:CYS303 4.2 34.9 1.0 N B:PHE267 4.3 33.8 1.0 CA B:CYS268 4.4 40.1 1.0 CA B:CYS302 4.4 30.3 1.0 CD B:PRO272 4.4 37.1 1.0 CA B:ARG271 4.6 39.7 1.0 C B:HIS266 4.6 41.6 1.0 O B:HOH547 4.8 51.2 1.0 N B:ARG271 4.8 44.7 1.0 O B:CYS302 4.9 33.8 1.0 CE2 B:PHE301 4.9 35.1 1.0

Zinc binding site 2 out of 2 in the Dna/Rna Binding Protein


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Dna/Rna Binding Protein within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn401 b:30.0 occ:0.84 ND1 A:HIS266 2.0 26.5 1.0 SG A:CYS303 2.3 35.9 1.0 SG A:CYS302 2.3 34.5 1.0 SG A:CYS268 2.4 35.7 1.0 CE1 A:HIS266 2.9 35.8 1.0 CG A:HIS266 3.2 35.6 1.0 CB A:CYS303 3.2 32.0 1.0 CB A:CYS302 3.3 27.3 1.0 CB A:CYS268 3.5 38.1 1.0 CB A:HIS266 3.6 30.6 1.0 N A:CYS303 3.7 29.2 1.0 CA A:HIS266 3.9 29.6 1.0 NE2 A:HIS266 4.0 33.1 1.0 C A:CYS302 4.1 33.2 1.0 CA A:CYS303 4.1 34.0 1.0 N A:CYS268 4.1 41.0 1.0 CD2 A:HIS266 4.2 29.1 1.0 N A:PHE267 4.3 37.2 1.0 CA A:CYS302 4.3 29.5 1.0 CD A:PRO272 4.4 34.6 1.0 CA A:CYS268 4.4 38.6 1.0 C A:HIS266 4.6 35.8 1.0 CA A:ARG271 4.7 38.6 1.0 O A:CYS302 4.8 37.7 1.0 N A:CYS302 4.9 27.4 1.0 N A:ARG271 4.9 41.0 1.0 CE2 A:PHE301 5.0 29.1 1.0

F.J.Metzner, E.Huber, K.P.Hopfner, K.Lammens. Structural and Biochemical Characterization of Human Schlafen 5. Nucleic Acids Res. V. 50 1147 2022.
ISSN: ESSN 1362-4962
PubMed: 35037067
DOI: 10.1093/NAR/GKAB1278