Zinc in PDB 7mke: Cryo-Em Structure of Escherichia Coli Rna Polymerase Bound to Lambda Pr Promoter Dna (Class 2)

Enzymatic activity of Cryo-Em Structure of Escherichia Coli Rna Polymerase Bound to Lambda Pr Promoter Dna (Class 2)

All present enzymatic activity of Cryo-Em Structure of Escherichia Coli Rna Polymerase Bound to Lambda Pr Promoter Dna (Class 2):
2.7.7.6;

Other elements in 7mke:

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

Zinc binding site 1 out of 2 in 7mke

Go back to Zinc Binding Sites List in 7mke
Zinc binding site 1 out of 2 in the Cryo-Em Structure of Escherichia Coli Rna Polymerase Bound to Lambda Pr Promoter Dna (Class 2)


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 2) within 5.0Å range:
probe atom residue distance (Å) B Occ
J:Zn1502

b:129.3
occ:1.00
CB J:CYS88 1.5 104.2 1.0
SG J:CYS85 2.3 103.3 1.0
SG J:CYS72 2.3 97.0 1.0
SG J:CYS88 2.3 104.2 1.0
SG J:CYS70 2.3 96.2 1.0
N J:CYS88 2.4 104.2 1.0
CA J:CYS88 2.4 104.2 1.0
CB J:CYS85 2.9 103.3 1.0
CB J:CYS72 3.2 97.0 1.0
C J:CYS88 3.5 104.2 1.0
C J:LYS87 3.5 106.0 1.0
N J:CYS72 3.7 97.0 1.0
N J:GLY89 3.8 96.2 1.0
CB J:CYS70 4.0 96.2 1.0
CA J:CYS72 4.1 97.0 1.0
CA J:LYS87 4.3 106.0 1.0
N J:LYS87 4.3 106.0 1.0
CB J:LYS87 4.3 106.0 1.0
CA J:CYS85 4.4 103.3 1.0
O J:LYS87 4.4 106.0 1.0
N J:LEU71 4.5 90.3 1.0
O J:CYS88 4.6 104.2 1.0
N J:GLU86 4.7 106.2 1.0
N J:GLY73 4.8 99.3 1.0
C J:CYS85 4.8 103.3 1.0
C J:LEU71 4.8 90.3 1.0
CG J:LYS87 4.9 106.0 1.0
C J:CYS72 4.9 97.0 1.0
C J:GLU86 5.0 106.2 1.0

Zinc binding site 2 out of 2 in 7mke

Go back to Zinc Binding Sites List in 7mke
Zinc binding site 2 out of 2 in the Cryo-Em Structure of Escherichia Coli Rna Polymerase Bound to Lambda Pr Promoter Dna (Class 2)


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 2) within 5.0Å range:
probe atom residue distance (Å) B Occ
J:Zn1503

b:105.2
occ:1.00
SG J:CYS814 2.3 80.7 1.0
SG J:CYS888 2.3 74.2 1.0
SG J:CYS895 2.3 68.1 1.0
SG J:CYS898 2.3 69.9 1.0
CB J:CYS814 2.7 80.7 1.0
CB J:CYS898 2.7 69.9 1.0
CB J:CYS888 3.1 74.2 1.0
CB J:CYS895 3.4 68.1 1.0
CA J:CYS888 3.7 74.2 1.0
CA J:CYS898 3.9 69.9 1.0
CA J:CYS814 3.9 80.7 1.0
NH2 J:ARG883 3.9 75.7 1.0
N J:CYS814 4.0 80.7 1.0
N J:CYS898 4.0 69.9 1.0
N J:ASP889 4.0 80.6 1.0
N J:CYS895 4.2 68.1 1.0
CA J:CYS895 4.3 68.1 1.0
C J:CYS888 4.4 74.2 1.0
CZ J:ARG883 4.8 75.7 1.0
C J:CYS814 4.9 80.7 1.0
C J:CYS895 4.9 68.1 1.0
CG2 J:THR816 4.9 82.1 1.0
N J:CYS888 4.9 74.2 1.0
N J:GLY815 4.9 83.1 1.0
O J:CYS895 5.0 68.1 1.0
NE J:ARG883 5.0 75.7 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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