Zinc in PDB 7mkd: Cryo-Em Structure of Escherichia Coli Rna Polymerase Bound to Lambda Pr Promoter Dna (Class 1)

All present enzymatic activity of Cryo-Em Structure of Escherichia Coli Rna Polymerase Bound to Lambda Pr Promoter Dna (Class 1):
2.7.7.6;

The structure of Cryo-Em Structure of Escherichia Coli Rna Polymerase Bound to Lambda Pr Promoter Dna (Class 1) also contains other interesting chemical elements:

Magnesium

(Mg)

1 atom

The binding sites of Zinc atom in the Cryo-Em Structure of Escherichia Coli Rna Polymerase Bound to Lambda Pr Promoter Dna (Class 1) (pdb code 7mkd). 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 Escherichia Coli Rna Polymerase Bound to Lambda Pr Promoter Dna (Class 1), PDB code: 7mkd:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Cryo-Em Structure of Escherichia Coli Rna Polymerase Bound to Lambda Pr Promoter Dna (Class 1)


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 Escherichia Coli Rna Polymerase Bound to Lambda Pr Promoter Dna (Class 1) within 5.0Å range: probe atom residue distance (Å) B Occ J:Zn1502 b:127.1 occ:1.00 SG J:CYS88 1.3 102.1 1.0 CB J:CYS88 2.1 102.1 1.0 SG J:CYS72 2.3 105.0 1.0 SG J:CYS70 2.3 101.3 1.0 SG J:CYS85 2.4 104.4 1.0 N J:CYS88 3.1 102.1 1.0 CA J:CYS88 3.1 102.1 1.0 CB J:CYS72 3.5 105.0 1.0 N J:CYS72 3.5 105.0 1.0 CB J:CYS70 3.5 101.3 1.0 CB J:CYS85 3.6 104.4 1.0 CA J:CYS72 4.0 105.0 1.0 N J:LEU71 4.1 99.1 1.0 C J:CYS88 4.3 102.1 1.0 CB J:LYS74 4.3 106.0 1.0 C J:LYS87 4.3 107.7 1.0 N J:LYS74 4.3 106.0 1.0 N J:GLY73 4.3 104.7 1.0 C J:CYS72 4.5 105.0 1.0 N J:GLY89 4.5 97.3 1.0 C J:LEU71 4.6 99.1 1.0 C J:CYS70 4.6 101.3 1.0 CA J:CYS70 4.7 101.3 1.0 N J:LYS87 4.7 107.7 1.0 CA J:LEU71 4.8 99.1 1.0 CB J:LYS87 4.8 107.7 1.0 CA J:LYS87 4.9 107.7 1.0 CA J:CYS85 4.9 104.4 1.0 C J:CYS85 4.9 104.4 1.0 CA J:LYS74 4.9 106.0 1.0 CG J:LYS87 5.0 107.7 1.0

Zinc binding site 2 out of 2 in the Cryo-Em Structure of Escherichia Coli Rna Polymerase Bound to Lambda Pr Promoter Dna (Class 1)


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 Escherichia Coli Rna Polymerase Bound to Lambda Pr Promoter Dna (Class 1) within 5.0Å range: probe atom residue distance (Å) B Occ J:Zn1503 b:109.5 occ:1.00 SG J:CYS898 2.3 86.4 1.0 SG J:CYS895 2.3 87.6 1.0 SG J:CYS814 2.3 97.8 1.0 SG J:CYS888 2.3 94.2 1.0 CB J:CYS814 3.1 97.8 1.0 CB J:CYS898 3.1 86.4 1.0 CB J:CYS895 3.2 87.6 1.0 CB J:CYS888 3.4 94.2 1.0 CA J:CYS888 3.7 94.2 1.0 N J:ASP889 4.0 99.4 1.0 N J:CYS895 4.1 87.6 1.0 N J:CYS814 4.1 97.8 1.0 N J:CYS898 4.1 86.4 1.0 CA J:CYS895 4.2 87.6 1.0 CA J:CYS898 4.2 86.4 1.0 CA J:CYS814 4.2 97.8 1.0 NH2 J:ARG883 4.3 92.1 1.0 C J:CYS888 4.4 94.2 1.0 O J:CYS895 4.6 87.6 1.0 C J:CYS895 4.7 87.6 1.0 CG2 J:THR816 4.8 103.5 1.0 OG1 J:THR890 4.8 97.0 1.0 N J:CYS888 4.9 94.2 1.0

R.M.Saecker, J.Chen, C.Chiu, B.Malone, J.Sotiris, M.Ebrahim, L.Y.Yen, E.T.Eng, S.A.Darst. Structural Origins of Escherichia Coli Rna Polymerase Open Promoter Complex Stability To Be Published.