Zinc in PDB 7d7c: Cryoem Structure of GP55-Dependent Rna Polymerase-Promoter Open Complex

All present enzymatic activity of Cryoem Structure of GP55-Dependent Rna Polymerase-Promoter Open Complex:
2.7.7.6;

The structure of Cryoem Structure of GP55-Dependent Rna Polymerase-Promoter Open Complex also contains other interesting chemical elements:

Magnesium

(Mg)

1 atom

The binding sites of Zinc atom in the Cryoem Structure of GP55-Dependent Rna Polymerase-Promoter Open Complex (pdb code 7d7c). 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 GP55-Dependent Rna Polymerase-Promoter Open Complex, PDB code: 7d7c:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Cryoem Structure of GP55-Dependent Rna Polymerase-Promoter Open Complex


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 GP55-Dependent Rna Polymerase-Promoter Open Complex within 5.0Å range: probe atom residue distance (Å) B Occ D:Zn1502 b:238.6 occ:1.00 CB D:CYS72 2.5 210.8 1.0 CD D:LYS87 2.7 210.8 1.0 CE D:LYS87 2.8 210.8 1.0 NZ D:LYS87 3.1 210.8 1.0 SG D:CYS72 3.1 210.8 1.0 CB D:LYS87 3.1 210.8 1.0 CG D:LYS87 3.4 210.8 1.0 CA D:CYS72 3.7 210.8 1.0 N D:CYS72 4.0 210.8 1.0 N D:CYS88 4.2 197.1 1.0 CA D:LYS87 4.3 210.8 1.0 SG D:CYS88 4.4 197.1 1.0 N D:LYS87 4.7 210.8 1.0 SG D:CYS70 4.7 195.9 1.0 C D:LYS87 4.7 210.8 1.0 SG D:CYS85 4.7 204.6 1.0 CD1 D:LEU71 4.9 194.1 1.0 CB D:CYS88 4.9 197.1 1.0 C D:CYS72 5.0 210.8 1.0

Zinc binding site 2 out of 2 in the Cryoem Structure of GP55-Dependent Rna Polymerase-Promoter Open Complex


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 GP55-Dependent Rna Polymerase-Promoter Open Complex within 5.0Å range: probe atom residue distance (Å) B Occ D:Zn1503 b:131.6 occ:1.00 SG D:CYS814 2.2 115.3 1.0 SG D:CYS895 2.3 105.9 1.0 SG D:CYS898 2.3 103.2 1.0 SG D:CYS888 2.3 104.8 1.0 CB D:CYS814 2.5 115.3 1.0 NH2 D:ARG883 2.7 106.0 1.0 CB D:CYS898 3.2 103.2 1.0 CB D:CYS895 3.2 105.9 1.0 N D:CYS814 3.4 115.3 1.0 CA D:CYS814 3.5 115.3 1.0 CB D:CYS888 3.5 104.8 1.0 CA D:CYS888 3.9 104.8 1.0 N D:ASP889 3.9 115.7 1.0 N D:CYS895 4.0 105.9 1.0 CZ D:ARG883 4.0 106.0 1.0 CA D:CYS895 4.1 105.9 1.0 N D:CYS898 4.3 103.2 1.0 OG1 D:THR890 4.3 115.0 1.0 CA D:CYS898 4.3 103.2 1.0 C D:CYS888 4.5 104.8 1.0 C D:CYS814 4.5 115.3 1.0 O D:CYS895 4.6 105.9 1.0 C D:CYS895 4.6 105.9 1.0 C D:ASP813 4.6 111.0 1.0 NE D:ARG883 4.6 106.0 1.0 NH1 D:ARG883 5.0 106.0 1.0 OE1 D:GLU811 5.0 109.1 1.0

J.Shi, A.Wen, S.Jin, B.Gao, Y.Huang, Y.Feng. Transcription Activation By A Sliding Clamp. Nat Commun 2021.
ISSN: ESSN 2041-1723