Zinc in PDB 7p3f: Streptomyces Coelicolor Datp/Atp-Loaded Nrdr in Complex with Its Cognate Dna

The binding sites of Zinc atom in the Streptomyces Coelicolor Datp/Atp-Loaded Nrdr in Complex with Its Cognate Dna (pdb code 7p3f). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 4 binding sites of Zinc where determined in the Streptomyces Coelicolor Datp/Atp-Loaded Nrdr in Complex with Its Cognate Dna, PDB code: 7p3f:
Jump to Zinc binding site number: 1; 2; 3; 4;

Zinc binding site 1 out of 4 in the Streptomyces Coelicolor Datp/Atp-Loaded Nrdr in Complex with Its Cognate Dna


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Streptomyces Coelicolor Datp/Atp-Loaded Nrdr in Complex with Its Cognate Dna within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn203 b:121.9 occ:1.00 SG A:CYS34 2.3 75.2 1.0 SG A:CYS6 2.3 73.8 1.0 SG A:CYS3 2.3 72.6 1.0 SG A:CYS31 2.3 72.4 1.0 CB A:CYS31 2.9 72.4 1.0 CB A:CYS3 2.9 72.6 1.0 CB A:CYS34 3.6 75.2 1.0 CB A:CYS6 3.7 73.8 1.0 N A:CYS6 4.1 73.8 1.0 N A:CYS34 4.2 75.2 1.0 CB A:HIS8 4.2 73.0 1.0 CA A:CYS31 4.4 72.4 1.0 CA A:CYS3 4.4 72.6 1.0 CA A:CYS34 4.5 75.2 1.0 CA A:CYS6 4.5 73.8 1.0 C A:CYS31 4.9 72.4 1.0 N A:HIS8 4.9 73.0 1.0 CB A:ASP33 5.0 71.9 1.0 CB A:PHE5 5.0 70.6 1.0 O A:CYS31 5.0 72.4 1.0

Zinc binding site 2 out of 4 in the Streptomyces Coelicolor Datp/Atp-Loaded Nrdr in Complex with Its Cognate Dna


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Streptomyces Coelicolor Datp/Atp-Loaded Nrdr in Complex with Its Cognate Dna within 5.0Å range: probe atom residue distance (Å) B Occ C:Zn203 b:123.6 occ:1.00 SG C:CYS6 2.3 73.8 1.0 SG C:CYS3 2.3 72.6 1.0 SG C:CYS31 2.4 72.4 1.0 SG C:CYS34 2.4 75.2 1.0 CB C:CYS3 2.8 72.6 1.0 CB C:CYS31 2.9 72.4 1.0 CB C:CYS34 3.7 75.2 1.0 CB C:CYS6 3.7 73.8 1.0 N C:CYS6 4.1 73.8 1.0 CB C:HIS8 4.1 73.0 1.0 N C:CYS34 4.3 75.2 1.0 CA C:CYS3 4.4 72.6 1.0 CA C:CYS6 4.4 73.8 1.0 CA C:CYS31 4.4 72.4 1.0 CA C:CYS34 4.6 75.2 1.0 N C:HIS8 4.8 73.0 1.0 C C:CYS6 4.9 73.8 1.0 CB C:PHE5 4.9 70.6 1.0 C C:CYS3 4.9 72.6 1.0 C C:CYS31 5.0 72.4 1.0 CB C:ASP33 5.0 71.9 1.0

Zinc binding site 3 out of 4 in the Streptomyces Coelicolor Datp/Atp-Loaded Nrdr in Complex with Its Cognate Dna


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Streptomyces Coelicolor Datp/Atp-Loaded Nrdr in Complex with Its Cognate Dna within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn203 b:119.7 occ:1.00 SG B:CYS6 2.3 68.8 1.0 SG B:CYS34 2.3 77.6 1.0 SG B:CYS3 2.3 71.5 1.0 SG B:CYS31 2.5 74.4 1.0 CB B:CYS31 2.8 74.4 1.0 CB B:CYS3 2.9 71.5 1.0 CB B:CYS34 3.5 77.6 1.0 CB B:CYS6 3.7 68.8 1.0 N B:CYS6 4.0 68.8 1.0 N B:CYS34 4.1 77.6 1.0 CA B:CYS31 4.3 74.4 1.0 CA B:CYS3 4.3 71.5 1.0 CA B:CYS34 4.4 77.6 1.0 CA B:CYS6 4.4 68.8 1.0 CB B:PHE5 4.8 64.9 1.0 CB B:HIS8 4.8 73.5 1.0 C B:CYS3 4.8 71.5 1.0 C B:CYS6 4.9 68.8 1.0 C B:PHE5 4.9 64.9 1.0 N B:ARG7 5.0 67.1 1.0 N B:PHE5 5.0 64.9 1.0

Zinc binding site 4 out of 4 in the Streptomyces Coelicolor Datp/Atp-Loaded Nrdr in Complex with Its Cognate Dna


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Streptomyces Coelicolor Datp/Atp-Loaded Nrdr in Complex with Its Cognate Dna within 5.0Å range: probe atom residue distance (Å) B Occ D:Zn203 b:122.4 occ:1.00 SG D:CYS6 2.2 68.8 1.0 SG D:CYS31 2.3 74.4 1.0 SG D:CYS34 2.5 77.6 1.0 SG D:CYS3 2.5 71.5 1.0 CB D:CYS31 2.8 74.4 1.0 CB D:CYS3 2.9 71.5 1.0 CB D:CYS34 3.5 77.6 1.0 CB D:CYS6 3.7 68.8 1.0 N D:CYS34 4.0 77.6 1.0 N D:CYS6 4.1 68.8 1.0 CA D:CYS31 4.3 74.4 1.0 CA D:CYS34 4.4 77.6 1.0 CA D:CYS3 4.4 71.5 1.0 CA D:CYS6 4.4 68.8 1.0 CB D:HIS8 4.5 73.5 1.0 C D:CYS6 4.8 68.8 1.0 N D:HIS8 4.8 73.5 1.0 C D:CYS3 4.9 71.5 1.0 N D:ARG7 4.9 67.1 1.0 CB D:ASP33 4.9 76.5 1.0 C D:CYS31 5.0 74.4 1.0

I.Rozman Grinberg, M.Martinez-Carranza, O.Bimai, G.Nouairia, S.Shahid, D.Lundin, D.T.Logan, B.M.Sjoberg, P.Stenmark. A Nucleotide-Sensing Oligomerization Mechanism That Controls Nrdr-Dependent Transcription of Ribonucleotide Reductases. Nat Commun V. 13 2700 2022.
ISSN: ESSN 2041-1723
PubMed: 35577776
DOI: 10.1038/S41467-022-30328-1