Zinc in PDB 6edt: Mycobacterium Tuberculosis Rnap Open Promoter Complex with Rbpa/Card and AP3 Promoter

All present enzymatic activity of Mycobacterium Tuberculosis Rnap Open Promoter Complex with Rbpa/Card and AP3 Promoter:
2.7.7.6;

The structure of Mycobacterium Tuberculosis Rnap Open Promoter Complex with Rbpa/Card and AP3 Promoter also contains other interesting chemical elements:

Magnesium

(Mg)

1 atom

The binding sites of Zinc atom in the Mycobacterium Tuberculosis Rnap Open Promoter Complex with Rbpa/Card and AP3 Promoter (pdb code 6edt). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Mycobacterium Tuberculosis Rnap Open Promoter Complex with Rbpa/Card and AP3 Promoter, PDB code: 6edt:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Mycobacterium Tuberculosis Rnap Open Promoter Complex with Rbpa/Card and AP3 Promoter


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Mycobacterium Tuberculosis Rnap Open Promoter Complex with Rbpa/Card and AP3 Promoter within 5.0Å range: probe atom residue distance (Å) B Occ D:Zn2000 b:0.4 occ:1.00 SG D:CYS968 2.4 0.2 1.0 SG D:CYS891 2.4 0.7 1.0 SG D:CYS978 2.4 94.0 1.0 CB D:CYS968 2.5 0.2 1.0 CA D:CYS968 2.6 0.2 1.0 CB D:CYS891 2.7 0.7 1.0 SG D:CYS975 2.9 90.1 1.0 C D:CYS968 3.4 0.2 1.0 CB D:CYS978 3.4 94.0 1.0 N D:ALA969 3.4 97.2 1.0 N D:CYS968 3.8 0.2 1.0 CB D:CYS975 4.0 90.1 1.0 CA D:CYS891 4.1 0.7 1.0 O D:THR967 4.3 93.8 1.0 N D:CYS891 4.3 0.7 1.0 O D:CYS968 4.5 0.2 1.0 N D:CYS975 4.5 90.1 1.0 C D:THR967 4.5 93.8 1.0 CG2 D:THR893 4.6 99.5 1.0 CA D:CYS978 4.7 94.0 1.0 N D:THR970 4.7 95.0 1.0 N D:CYS978 4.8 94.0 1.0 CA D:ALA969 4.8 97.2 1.0 CA D:CYS975 4.9 90.1 1.0 CG2 D:THR970 4.9 95.0 1.0

Zinc binding site 2 out of 2 in the Mycobacterium Tuberculosis Rnap Open Promoter Complex with Rbpa/Card and AP3 Promoter


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Mycobacterium Tuberculosis Rnap Open Promoter Complex with Rbpa/Card and AP3 Promoter within 5.0Å range: probe atom residue distance (Å) B Occ D:Zn2001 b:1.0 occ:1.00 N D:CYS62 2.2 0.4 1.0 SG D:CYS62 2.4 0.4 1.0 SG D:CYS78 2.4 0.5 1.0 SG D:CYS60 2.5 0.4 1.0 CB D:CYS78 2.7 0.5 1.0 CB D:CYS62 2.9 0.4 1.0 CA D:CYS62 3.0 0.4 1.0 N D:TYR61 3.1 0.0 1.0 CB D:CYS60 3.3 0.4 1.0 C D:TYR61 3.3 0.0 1.0 SG D:CYS75 3.5 0.2 1.0 N D:GLY63 3.6 0.8 1.0 C D:CYS62 3.6 0.4 1.0 CA D:TYR61 3.6 0.0 1.0 C D:CYS60 3.8 0.4 1.0 CA D:CYS78 4.0 0.5 1.0 N D:CYS78 4.1 0.5 1.0 CB D:CYS75 4.1 0.2 1.0 CB D:TYR61 4.1 0.0 1.0 CA D:CYS60 4.1 0.4 1.0 O D:TYR61 4.4 0.0 1.0 N D:LYS64 4.5 1.0 1.0 O D:CYS60 4.7 0.4 1.0 O D:CYS62 4.7 0.4 1.0 CA D:GLY63 4.8 0.8 1.0 C D:CYS78 4.9 0.5 1.0

H.Boyaci, J.Chen, R.Jansen, S.A.Darst, E.A.Campbell. Structures of An Rna Polymerase Promoter Melting Intermediate Elucidate Dna Unwinding. Nature V. 565 382 2019.
ISSN: ESSN 1476-4687
PubMed: 30626968
DOI: 10.1038/S41586-018-0840-5