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Zinc in PDB 7py5: Cryoem Structure of E.Coli Rna Polymerase Elongation Complex Bound to Nusa and Nusg (the Consensus Nusa-Nusg-Ec)

Enzymatic activity of Cryoem Structure of E.Coli Rna Polymerase Elongation Complex Bound to Nusa and Nusg (the Consensus Nusa-Nusg-Ec)

All present enzymatic activity of Cryoem Structure of E.Coli Rna Polymerase Elongation Complex Bound to Nusa and Nusg (the Consensus Nusa-Nusg-Ec):
2.7.7.6;

Other elements in 7py5:

The structure of Cryoem Structure of E.Coli Rna Polymerase Elongation Complex Bound to Nusa and Nusg (the Consensus Nusa-Nusg-Ec) also contains other interesting chemical elements:

Magnesium (Mg) 1 atom

Zinc Binding Sites:

The binding sites of Zinc atom in the Cryoem Structure of E.Coli Rna Polymerase Elongation Complex Bound to Nusa and Nusg (the Consensus Nusa-Nusg-Ec) (pdb code 7py5). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Cryoem Structure of E.Coli Rna Polymerase Elongation Complex Bound to Nusa and Nusg (the Consensus Nusa-Nusg-Ec), PDB code: 7py5:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in 7py5

Go back to Zinc Binding Sites List in 7py5
Zinc binding site 1 out of 2 in the Cryoem Structure of E.Coli Rna Polymerase Elongation Complex Bound to Nusa and Nusg (the Consensus Nusa-Nusg-Ec)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Cryoem Structure of E.Coli Rna Polymerase Elongation Complex Bound to Nusa and Nusg (the Consensus Nusa-Nusg-Ec) within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Zn1502

b:105.7
occ:1.00
SG D:CYS72 2.3 87.1 1.0
SG D:CYS88 2.3 79.5 1.0
N D:CYS72 2.5 87.1 1.0
CB D:CYS70 2.7 83.4 1.0
CB D:CYS72 2.8 87.1 1.0
CA D:CYS72 3.1 87.1 1.0
N D:LEU71 3.2 79.5 1.0
SG D:CYS85 3.4 81.5 1.0
N D:GLY73 3.5 84.1 1.0
C D:CYS70 3.5 83.4 1.0
C D:LEU71 3.6 79.5 1.0
CA D:CYS70 3.7 83.4 1.0
C D:CYS72 3.8 87.1 1.0
CB D:CYS88 3.8 79.5 1.0
CA D:LEU71 3.9 79.5 1.0
CB D:CYS85 3.9 81.5 1.0
SG D:CYS70 4.1 83.4 1.0
O D:CYS70 4.2 83.4 1.0
N D:LYS74 4.4 90.6 1.0
CB D:LEU71 4.6 79.5 1.0
N D:CYS88 4.6 79.5 1.0
O D:LEU71 4.7 79.5 1.0
CA D:GLY73 4.7 84.1 1.0
N D:CYS70 4.8 83.4 1.0
CA D:CYS88 4.8 79.5 1.0

Zinc binding site 2 out of 2 in 7py5

Go back to Zinc Binding Sites List in 7py5
Zinc binding site 2 out of 2 in the Cryoem Structure of E.Coli Rna Polymerase Elongation Complex Bound to Nusa and Nusg (the Consensus Nusa-Nusg-Ec)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Cryoem Structure of E.Coli Rna Polymerase Elongation Complex Bound to Nusa and Nusg (the Consensus Nusa-Nusg-Ec) within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Zn1503

b:110.8
occ:1.00
SG D:CYS898 2.3 41.3 1.0
SG D:CYS888 2.3 43.1 1.0
SG D:CYS895 2.3 39.8 1.0
SG D:CYS814 2.3 54.2 1.0
CB D:CYS814 2.8 54.2 1.0
CB D:CYS898 3.2 41.3 1.0
CB D:CYS888 3.4 43.1 1.0
NH2 D:ARG883 3.6 52.7 1.0
CB D:CYS895 3.6 39.8 1.0
N D:CYS814 3.9 54.2 1.0
CA D:CYS814 3.9 54.2 1.0
CA D:CYS888 4.1 43.1 1.0
N D:CYS898 4.2 41.3 1.0
CA D:CYS898 4.3 41.3 1.0
OG1 D:THR816 4.4 63.8 1.0
N D:CYS895 4.5 39.8 1.0
CA D:CYS895 4.6 39.8 1.0
CZ D:ARG883 4.7 52.7 1.0
O D:CYS895 4.7 39.8 1.0
NE D:ARG883 4.8 52.7 1.0
C D:CYS814 4.9 54.2 1.0
N D:GLY815 4.9 56.4 1.0
C D:CYS895 4.9 39.8 1.0
N D:ASP889 4.9 55.8 1.0
C D:CYS888 5.0 43.1 1.0

Reference:

C.Zhu, X.Guo, P.Dumas, M.Takacs, M.Abdelkareem, A.Vanden Broeck, C.Saint-Andre, G.Papai, C.Crucifix, J.Ortiz, A.Weixlbaumer. Transcription Factors Modulate Rna Polymerase Conformational Equilibrium. Nat Commun V. 13 1546 2022.
ISSN: ESSN 2041-1723
PubMed: 35318334
DOI: 10.1038/S41467-022-29148-0
Page generated: Sat Apr 8 01:40:26 2023

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