Zinc in PDB 7w5w: Cryo-Em Structure of Soxs-Dependent Transcription Activation Complex with Micf Promoter Dna

All present enzymatic activity of Cryo-Em Structure of Soxs-Dependent Transcription Activation Complex with Micf Promoter Dna:
2.7.7.6;

The structure of Cryo-Em Structure of Soxs-Dependent Transcription Activation Complex with Micf Promoter Dna also contains other interesting chemical elements:

Magnesium

(Mg)

1 atom

The binding sites of Zinc atom in the Cryo-Em Structure of Soxs-Dependent Transcription Activation Complex with Micf Promoter Dna (pdb code 7w5w). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Cryo-Em Structure of Soxs-Dependent Transcription Activation Complex with Micf Promoter Dna, PDB code: 7w5w:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Cryo-Em Structure of Soxs-Dependent Transcription Activation Complex with Micf Promoter Dna


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Cryo-Em Structure of Soxs-Dependent Transcription Activation Complex with Micf Promoter Dna within 5.0Å range: probe atom residue distance (Å) B Occ D:Zn1501 b:299.2 occ:1.00 N D:LEU71 2.2 256.1 1.0 N D:CYS72 2.3 255.4 1.0 SG D:CYS88 2.5 219.4 1.0 C D:CYS70 2.7 249.3 1.0 CB D:CYS70 2.7 249.3 1.0 C D:LEU71 3.0 256.1 1.0 CA D:LEU71 3.0 256.1 1.0 N D:GLY73 3.1 264.0 1.0 CA D:CYS70 3.2 249.3 1.0 SG D:CYS72 3.2 255.4 1.0 CA D:CYS72 3.3 255.4 1.0 O D:CYS70 3.4 249.3 1.0 C D:CYS72 3.6 255.4 1.0 CB D:CYS88 3.6 219.4 1.0 SG D:CYS85 3.7 244.9 1.0 CB D:CYS72 3.7 255.4 1.0 CB D:LEU71 3.8 256.1 1.0 O D:LEU71 4.1 256.1 1.0 CB D:CYS85 4.2 244.9 1.0 CA D:GLY73 4.2 264.0 1.0 N D:LYS74 4.3 256.5 1.0 SG D:CYS70 4.3 249.3 1.0 N D:CYS70 4.4 249.3 1.0 O D:CYS72 4.8 255.4 1.0 C D:GLY73 4.8 264.0 1.0 CA D:CYS88 5.0 219.4 1.0

Zinc binding site 2 out of 2 in the Cryo-Em Structure of Soxs-Dependent Transcription Activation Complex with Micf Promoter Dna


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Cryo-Em Structure of Soxs-Dependent Transcription Activation Complex with Micf Promoter Dna within 5.0Å range: probe atom residue distance (Å) B Occ D:Zn1502 b:119.9 occ:1.00 N D:CYS895 2.2 90.6 1.0 O D:CYS895 2.3 90.6 1.0 SG D:CYS895 2.4 90.6 1.0 SG D:CYS888 2.5 87.4 1.0 CB D:CYS898 2.5 78.5 1.0 CA D:CYS895 2.6 90.6 1.0 C D:CYS895 2.7 90.6 1.0 CB D:CYS895 2.9 90.6 1.0 SG D:CYS898 3.2 78.5 1.0 N D:CYS898 3.4 78.5 1.0 C D:VAL894 3.4 80.7 1.0 CA D:CYS898 3.4 78.5 1.0 CB D:CYS888 3.6 87.4 1.0 CA D:VAL894 3.9 80.7 1.0 N D:ALA896 4.0 80.6 1.0 CB D:VAL894 4.0 80.7 1.0 C D:CYS898 4.1 78.5 1.0 N D:TYR899 4.3 66.8 1.0 O D:VAL894 4.4 80.7 1.0 C D:HIS897 4.6 84.2 1.0 SG D:CYS814 4.7 92.8 1.0 N D:HIS897 4.7 84.2 1.0 CA D:CYS888 4.8 87.4 1.0 O D:CYS898 4.8 78.5 1.0 C D:ALA896 4.9 80.6 1.0 CA D:ALA896 4.9 80.6 1.0 CG1 D:VAL894 5.0 80.7 1.0

J.Shi, L.Wang, A.Wen, F.Wang, Y.Zhang, L.Yu, F.Li, Y.Jin, Z.Feng, J.Li, Y.Yang, F.Gao, Y.Zhang, Y.Feng, S.Wang, W.Zhao, W.Lin. Structural Basis of Three Different Transcription Activation Strategies Adopted By A Single Regulator Soxs. Nucleic Acids Res. V. 50 11359 2022.
ISSN: ESSN 1362-4962
PubMed: 36243985
DOI: 10.1093/NAR/GKAC898