Zinc in PDB 8fiy: Cryo-Em Structure of E. Coli Rna Polymerase Elongation Complex in the Transcription-Translation Complex (Rnap in An Anti-Swiveled Conformation)

Enzymatic activity of Cryo-Em Structure of E. Coli Rna Polymerase Elongation Complex in the Transcription-Translation Complex (Rnap in An Anti-Swiveled Conformation)

All present enzymatic activity of Cryo-Em Structure of E. Coli Rna Polymerase Elongation Complex in the Transcription-Translation Complex (Rnap in An Anti-Swiveled Conformation):
2.7.7.6;

Other elements in 8fiy:

The structure of Cryo-Em Structure of E. Coli Rna Polymerase Elongation Complex in the Transcription-Translation Complex (Rnap in An Anti-Swiveled Conformation) 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 E. Coli Rna Polymerase Elongation Complex in the Transcription-Translation Complex (Rnap in An Anti-Swiveled Conformation) (pdb code 8fiy). 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 E. Coli Rna Polymerase Elongation Complex in the Transcription-Translation Complex (Rnap in An Anti-Swiveled Conformation), PDB code: 8fiy:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in 8fiy

Go back to Zinc Binding Sites List in 8fiy
Zinc binding site 1 out of 2 in the Cryo-Em Structure of E. Coli Rna Polymerase Elongation Complex in the Transcription-Translation Complex (Rnap in An Anti-Swiveled Conformation)


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 E. Coli Rna Polymerase Elongation Complex in the Transcription-Translation Complex (Rnap in An Anti-Swiveled Conformation) within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Zn1501

b:1000.0
occ:1.00
SG D:CYS85 2.3 1000.0 1.0
SG D:CYS88 2.3 1000.0 1.0
SG D:CYS72 2.3 1000.0 1.0
SG D:CYS70 2.3 1000.0 1.0
CB D:CYS85 3.0 1000.0 1.0
CB D:CYS72 3.8 1000.0 1.0
N D:CYS72 3.8 1000.0 1.0
CB D:CYS88 3.9 1000.0 1.0
CB D:CYS70 4.0 1000.0 1.0
N D:CYS88 4.1 1000.0 1.0
CA D:CYS72 4.3 1000.0 1.0
CG2 D:VAL90 4.5 1000.0 1.0
N D:LEU71 4.5 1000.0 1.0
CA D:CYS85 4.5 1000.0 1.0
CA D:CYS88 4.6 1000.0 1.0
CB D:LYS74 4.6 1000.0 1.0
N D:GLY89 4.7 1000.0 1.0
C D:CYS72 4.9 1000.0 1.0
C D:LEU71 4.9 1000.0 1.0
CB D:LYS87 4.9 1000.0 1.0
N D:GLY73 4.9 1000.0 1.0
N D:LYS87 4.9 1000.0 1.0
N D:GLU86 5.0 1000.0 1.0

Zinc binding site 2 out of 2 in 8fiy

Go back to Zinc Binding Sites List in 8fiy
Zinc binding site 2 out of 2 in the Cryo-Em Structure of E. Coli Rna Polymerase Elongation Complex in the Transcription-Translation Complex (Rnap in An Anti-Swiveled Conformation)


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 E. Coli Rna Polymerase Elongation Complex in the Transcription-Translation Complex (Rnap in An Anti-Swiveled Conformation) within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Zn1502

b:831.6
occ:1.00
SG D:CYS898 2.3 455.7 1.0
SG D:CYS895 2.3 586.2 1.0
SG D:CYS814 2.3 845.6 1.0
SG D:CYS888 2.3 582.7 1.0
CB D:CYS814 2.6 845.6 1.0
CB D:CYS888 3.3 582.7 1.0
CB D:CYS898 3.5 455.7 1.0
CB D:CYS895 3.7 586.2 1.0
CA D:CYS814 3.9 845.6 1.0
CA D:CYS888 4.0 582.7 1.0
N D:CYS814 4.0 845.6 1.0
N D:CYS895 4.1 586.2 1.0
OG1 D:THR890 4.2 645.8 1.0
N D:CYS898 4.4 455.7 1.0
OG1 D:THR816 4.5 724.4 1.0
CA D:CYS895 4.5 586.2 1.0
CA D:CYS898 4.5 455.7 1.0
N D:ASP889 4.5 656.6 1.0
CG1 D:VAL894 4.6 535.7 1.0
C D:CYS888 4.7 582.7 1.0
CD D:ARG883 4.7 521.4 1.0
C D:CYS814 4.9 845.6 1.0
O D:CYS895 5.0 586.2 1.0

Reference:

L.M.Wee, A.B.Tong, A.J.Florez Ariza, C.Canari-Chumpitaz, P.Grob, E.Nogales, C.J.Bustamante. A Trailing Ribosome Speeds Up Rna Polymerase at the Expense of Transcript Fidelity Via Force and Allostery. Cell V. 186 1244 2023.
ISSN: ISSN 1097-4172
PubMed: 36931247
DOI: 10.1016/J.CELL.2023.02.008
Page generated: Wed Oct 30 20:26:43 2024

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