Zinc in PDB 6pss: Escherichia Coli Rna Polymerase Promoter Unwinding Intermediate (TRPI1.5A) with Trar and Mutant Rpst P2 Promoter

All present enzymatic activity of Escherichia Coli Rna Polymerase Promoter Unwinding Intermediate (TRPI1.5A) with Trar and Mutant Rpst P2 Promoter:
2.7.7.6;

The structure of Escherichia Coli Rna Polymerase Promoter Unwinding Intermediate (TRPI1.5A) with Trar and Mutant Rpst P2 Promoter also contains other interesting chemical elements:

Magnesium

(Mg)

1 atom

The binding sites of Zinc atom in the Escherichia Coli Rna Polymerase Promoter Unwinding Intermediate (TRPI1.5A) with Trar and Mutant Rpst P2 Promoter (pdb code 6pss). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 3 binding sites of Zinc where determined in the Escherichia Coli Rna Polymerase Promoter Unwinding Intermediate (TRPI1.5A) with Trar and Mutant Rpst P2 Promoter, PDB code: 6pss:
Jump to Zinc binding site number: 1; 2; 3;

Zinc binding site 1 out of 3 in the Escherichia Coli Rna Polymerase Promoter Unwinding Intermediate (TRPI1.5A) with Trar and Mutant Rpst P2 Promoter


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Escherichia Coli Rna Polymerase Promoter Unwinding Intermediate (TRPI1.5A) with Trar and Mutant Rpst P2 Promoter within 5.0Å range: probe atom residue distance (Å) B Occ J:Zn1502 b:81.3 occ:1.00 SG J:CYS72 2.4 49.8 1.0 SG J:CYS88 2.5 62.1 1.0 SG J:CYS85 2.5 56.7 1.0 CB J:CYS85 2.7 56.7 1.0 CB J:CYS70 2.7 52.5 1.0 SG J:CYS70 3.1 52.5 1.0 CB J:CYS72 3.3 49.8 1.0 N J:CYS72 3.6 49.8 1.0 CG1 J:VAL90 3.9 42.7 1.0 CA J:CYS70 4.0 52.5 1.0 CA J:CYS72 4.0 49.8 1.0 CB J:CYS88 4.1 62.1 1.0 N J:LEU71 4.1 45.8 1.0 CA J:CYS85 4.2 56.7 1.0 N J:CYS88 4.3 62.1 1.0 C J:CYS70 4.4 52.5 1.0 N J:GLY73 4.6 50.8 1.0 CA J:CYS88 4.7 62.1 1.0 C J:LEU71 4.7 45.8 1.0 C J:CYS72 4.8 49.8 1.0 C J:CYS85 4.9 56.7 1.0 N J:CYS85 4.9 56.7 1.0 N J:GLY89 4.9 48.1 1.0 CA J:LEU71 5.0 45.8 1.0

Zinc binding site 2 out of 3 in the Escherichia Coli Rna Polymerase Promoter Unwinding Intermediate (TRPI1.5A) with Trar and Mutant Rpst P2 Promoter


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Escherichia Coli Rna Polymerase Promoter Unwinding Intermediate (TRPI1.5A) with Trar and Mutant Rpst P2 Promoter within 5.0Å range: probe atom residue distance (Å) B Occ J:Zn1503 b:33.9 occ:1.00 SG J:CYS895 2.4 26.5 1.0 SG J:CYS898 2.4 23.6 1.0 SG J:CYS888 2.4 25.5 1.0 SG J:CYS814 2.5 37.9 1.0 CB J:CYS898 2.9 23.6 1.0 CB J:CYS895 2.9 26.5 1.0 CB J:CYS814 3.4 37.9 1.0 CB J:CYS888 3.6 25.5 1.0 NH2 J:ARG883 3.8 30.8 1.0 N J:CYS898 3.8 23.6 1.0 N J:CYS895 3.9 26.5 1.0 CA J:CYS898 3.9 23.6 1.0 N J:CYS814 3.9 37.9 1.0 CA J:CYS888 4.0 25.5 1.0 CA J:CYS895 4.0 26.5 1.0 CA J:CYS814 4.3 37.9 1.0 N J:ASP889 4.3 29.0 1.0 CZ J:ARG883 4.5 30.8 1.0 NE J:ARG883 4.5 30.8 1.0 C J:CYS888 4.6 25.5 1.0 C J:CYS895 4.7 26.5 1.0 N J:GLY815 4.8 36.9 1.0 C J:CYS814 4.9 37.9 1.0 CG2 J:THR816 5.0 36.4 1.0 C J:HIS897 5.0 24.8 1.0

Zinc binding site 3 out of 3 in the Escherichia Coli Rna Polymerase Promoter Unwinding Intermediate (TRPI1.5A) with Trar and Mutant Rpst P2 Promoter


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Escherichia Coli Rna Polymerase Promoter Unwinding Intermediate (TRPI1.5A) with Trar and Mutant Rpst P2 Promoter within 5.0Å range: probe atom residue distance (Å) B Occ N:Zn101 b:65.8 occ:1.00 SG N:CYS37 2.5 55.8 1.0 SG N:CYS58 2.5 53.7 1.0 CB N:CYS58 2.5 53.7 1.0 N N:CYS58 2.8 53.7 1.0 CB N:CYS61 2.9 51.0 1.0 CB N:CYS37 3.0 55.8 1.0 CA N:CYS58 3.2 53.7 1.0 SG N:CYS40 3.4 62.8 1.0 SG N:CYS61 3.8 51.0 1.0 C N:LEU57 4.0 49.9 1.0 C N:CYS58 4.1 53.7 1.0 CB N:CYS40 4.1 62.8 1.0 CA N:CYS61 4.1 51.0 1.0 N N:CYS61 4.2 51.0 1.0 CA N:CYS37 4.4 55.8 1.0 CA N:LEU57 4.4 49.9 1.0 O N:CYS58 4.5 53.7 1.0 N N:CYS40 4.7 62.8 1.0 N N:VAL59 4.8 50.6 1.0 CB N:LEU57 4.8 49.9 1.0 C N:CYS61 4.9 51.0 1.0 N N:GLN62 5.0 49.1 1.0

J.Chen, C.Chiu, S.Gopalkrishnan, A.Y.Chen, P.D.B.Olinares, R.M.Saecker, J.T.Winkelman, M.F.Maloney, B.T.Chait, W.Ross, R.L.Gourse, E.A.Campbell, S.A.Darst. Stepwise Promoter Melting By Bacterial Rna Polymerase. Mol.Cell 2020.
ISSN: ISSN 1097-2765
PubMed: 32160514
DOI: 10.1016/J.MOLCEL.2020.02.017