Zinc in PDB 7mki: Cryo-Em Structure of Escherichia Coli Rna Polymerase Bound to Lambda Pr (-5G to C) Promoter Dna

Enzymatic activity of Cryo-Em Structure of Escherichia Coli Rna Polymerase Bound to Lambda Pr (-5G to C) Promoter Dna

All present enzymatic activity of Cryo-Em Structure of Escherichia Coli Rna Polymerase Bound to Lambda Pr (-5G to C) Promoter Dna:
2.7.7.6;

Other elements in 7mki:

The structure of Cryo-Em Structure of Escherichia Coli Rna Polymerase Bound to Lambda Pr (-5G to C) Promoter Dna also contains other interesting chemical elements:

Magnesium (Mg) 1 atom

Zinc Binding Sites:

The binding sites of Zinc atom in the Cryo-Em Structure of Escherichia Coli Rna Polymerase Bound to Lambda Pr (-5G to C) Promoter Dna (pdb code 7mki). 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 (-5G to C) Promoter Dna, PDB code: 7mki:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in 7mki

Go back to Zinc Binding Sites List in 7mki
Zinc binding site 1 out of 2 in the Cryo-Em Structure of Escherichia Coli Rna Polymerase Bound to Lambda Pr (-5G to C) 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 Escherichia Coli Rna Polymerase Bound to Lambda Pr (-5G to C) Promoter Dna within 5.0Å range:
probe atom residue distance (Å) B Occ
J:Zn1502

b:122.8
occ:1.00
SG J:CYS70 2.3 58.8 1.0
SG J:CYS72 2.3 60.7 1.0
SG J:CYS85 2.3 77.4 1.0
SG J:CYS88 2.3 70.9 1.0
CB J:CYS85 3.1 77.4 1.0
CB J:CYS72 3.4 60.7 1.0
N J:CYS72 3.7 60.7 1.0
CB J:CYS70 3.9 58.8 1.0
N J:CYS88 3.9 70.9 1.0
CB J:CYS88 4.0 70.9 1.0
CA J:CYS72 4.2 60.7 1.0
CB J:LYS87 4.3 76.5 1.0
N J:LEU71 4.5 52.9 1.0
CA J:CYS88 4.5 70.9 1.0
CA J:CYS85 4.6 77.4 1.0
N J:GLY73 4.7 63.7 1.0
N J:LYS87 4.7 76.5 1.0
C J:LYS87 4.7 76.5 1.0
CB J:LYS74 4.8 72.0 1.0
CA J:LYS87 4.8 76.5 1.0
C J:LEU71 4.9 52.9 1.0
C J:CYS70 4.9 58.8 1.0
C J:CYS72 4.9 60.7 1.0
CA J:CYS70 4.9 58.8 1.0
C J:CYS88 5.0 70.9 1.0
N J:GLY89 5.0 63.8 1.0
N J:LYS74 5.0 72.0 1.0

Zinc binding site 2 out of 2 in 7mki

Go back to Zinc Binding Sites List in 7mki
Zinc binding site 2 out of 2 in the Cryo-Em Structure of Escherichia Coli Rna Polymerase Bound to Lambda Pr (-5G to C) 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 Escherichia Coli Rna Polymerase Bound to Lambda Pr (-5G to C) Promoter Dna within 5.0Å range:
probe atom residue distance (Å) B Occ
J:Zn1503

b:64.3
occ:1.00
SG J:CYS895 2.3 34.3 1.0
SG J:CYS898 2.3 39.7 1.0
SG J:CYS888 2.3 45.0 1.0
SG J:CYS814 2.3 53.9 1.0
CB J:CYS898 2.8 39.7 1.0
CB J:CYS814 3.2 53.9 1.0
CB J:CYS888 3.5 45.0 1.0
CB J:CYS895 3.6 34.3 1.0
CA J:CYS888 3.9 45.0 1.0
CA J:CYS898 4.1 39.7 1.0
N J:ASP889 4.2 55.2 1.0
N J:CYS814 4.2 53.9 1.0
NH2 J:ARG883 4.2 43.9 1.0
N J:CYS895 4.2 34.3 1.0
N J:CYS898 4.2 39.7 1.0
CA J:CYS814 4.3 53.9 1.0
OG1 J:THR816 4.4 55.1 1.0
OG1 J:THR890 4.4 47.8 1.0
CA J:CYS895 4.5 34.3 1.0
C J:CYS888 4.6 45.0 1.0

Reference:

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.
Page generated: Fri Nov 5 16:55:05 2021

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