Zinc in PDB 6fbv: Single Particle Cryo Em Structure of Mycobacterium Tuberculosis Rna Polymerase in Complex with Fidaxomicin

All present enzymatic activity of Single Particle Cryo Em Structure of Mycobacterium Tuberculosis Rna Polymerase in Complex with Fidaxomicin:
2.7.7.6;

The structure of Single Particle Cryo Em Structure of Mycobacterium Tuberculosis Rna Polymerase in Complex with Fidaxomicin also contains other interesting chemical elements:

Magnesium	(Mg)	1 atom
Chlorine	(Cl)	2 atoms

The binding sites of Zinc atom in the Single Particle Cryo Em Structure of Mycobacterium Tuberculosis Rna Polymerase in Complex with Fidaxomicin (pdb code 6fbv). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Single Particle Cryo Em Structure of Mycobacterium Tuberculosis Rna Polymerase in Complex with Fidaxomicin, PDB code: 6fbv:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Single Particle Cryo Em Structure of Mycobacterium Tuberculosis Rna Polymerase in Complex with Fidaxomicin


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Single Particle Cryo Em Structure of Mycobacterium Tuberculosis Rna Polymerase in Complex with Fidaxomicin within 5.0Å range: probe atom residue distance (Å) B Occ D:Zn1901 b:92.5 occ:1.00 SG D:CYS978 2.3 67.8 1.0 SG D:CYS891 2.4 64.1 1.0 SG D:CYS968 2.4 61.0 1.0 SG D:CYS975 2.4 57.3 1.0 CB D:CYS891 3.5 52.9 1.0 CB D:CYS975 3.6 42.2 1.0 CB D:CYS968 3.6 53.4 1.0 CB D:CYS978 3.7 44.9 1.0 CA D:CYS968 3.8 48.5 1.0 N D:ALA969 4.1 54.7 1.0 N D:CYS891 4.2 49.6 1.0 N D:CYS975 4.2 34.8 1.0 NH2 D:ARG963 4.3 58.0 1.0 OG1 D:THR970 4.3 55.5 1.0 CA D:CYS891 4.4 51.5 1.0 CA D:CYS975 4.4 37.0 1.0 C D:CYS968 4.5 55.8 1.0 O D:CYS975 4.5 40.7 1.0 OG1 D:THR893 4.7 54.6 1.0 NE D:ARG963 4.7 36.5 1.0 C D:CYS975 4.8 35.7 1.0 CA D:CYS978 4.8 39.5 1.0 N D:CYS978 4.9 36.3 1.0 CZ D:ARG963 5.0 49.6 1.0 N D:GLN892 5.0 54.0 1.0 N D:CYS968 5.0 41.5 1.0 C D:CYS891 5.0 55.0 1.0

Zinc binding site 2 out of 2 in the Single Particle Cryo Em Structure of Mycobacterium Tuberculosis Rna Polymerase in Complex with Fidaxomicin


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Single Particle Cryo Em Structure of Mycobacterium Tuberculosis Rna Polymerase in Complex with Fidaxomicin within 5.0Å range: probe atom residue distance (Å) B Occ D:Zn1902 b:0.6 occ:1.00 SG D:CYS60 2.3 0.5 1.0 SG D:CYS78 2.4 0.6 1.0 SG D:CYS62 2.4 0.8 1.0 SG D:CYS75 2.5 0.8 1.0 CB D:CYS75 3.5 1.0 1.0 CB D:CYS60 3.7 0.6 1.0 N D:CYS62 3.8 95.8 1.0 CB D:CYS78 3.8 0.9 1.0 CB D:CYS62 3.8 0.9 1.0 N D:CYS78 4.0 0.6 1.0 N D:TYR61 4.2 98.7 1.0 CB D:LYS64 4.4 0.4 1.0 CA D:CYS62 4.4 99.8 1.0 CB D:ARG77 4.4 0.3 1.0 CA D:CYS78 4.5 0.9 1.0 N D:LYS64 4.5 0.9 1.0 N D:GLY63 4.5 0.5 1.0 C D:ARG77 4.6 0.8 1.0 C D:TYR61 4.8 95.5 1.0 CA D:ARG77 4.9 0.9 1.0 N D:ARG77 4.9 93.9 1.0 CA D:CYS75 4.9 0.2 1.0 CA D:CYS60 4.9 94.6 1.0 C D:CYS62 4.9 0.9 1.0 C D:CYS60 5.0 96.6 1.0 CA D:TYR61 5.0 99.0 1.0

W.Lin, K.Das, D.Degen, A.Mazumder, D.Duchi, D.Wang, Y.W.Ebright, R.Y.Ebright, E.Sineva, M.Gigliotti, A.Srivastava, S.Mandal, Y.Jiang, Y.Liu, R.Yin, Z.Zhang, E.T.Eng, D.Thomas, S.Donadio, H.Zhang, C.Zhang, A.N.Kapanidis, R.H.Ebright. Structural Basis of Transcription Inhibition By Fidaxomicin (Lipiarmycin A3). Mol. Cell V. 70 60 2018.
ISSN: ISSN 1097-4164
PubMed: 29606590
DOI: 10.1016/J.MOLCEL.2018.02.026