Cloned (Comment) | Organism |
---|---|
expression of YrdD protein, the homologue of the topoisomerase I C-terminal region, that contains only iron or zinc by expressing the protein in Escherichia coli cells grown in the M9 minimal media supplemented with either iron or zinc, respectively | Escherichia coli |
Protein Variants | Comment | Organism |
---|---|---|
additional information | preparation of YrdD protein, the homologue of the topoisomerase I C-terminal region, that contains only iron or zinc by expressing the protein in Escherichia coli cells grown in the M9 minimal media supplemented with either iron or zinc, respectively | Escherichia coli |
Inhibitors | Comment | Organism | Structure |
---|---|---|---|
Fe2+ | the iron-bound enzyme fails to relax the negatively supercoiled DNA, the iron-bound YrdD has very little or no binding activity for single-stranded DNA. Iron-bound YrdD cannot protect ssDNA from the DNase I digestion | Escherichia coli |
Metals/Ions | Comment | Organism | Structure |
---|---|---|---|
Mg2+ | required | Escherichia coli | |
additional information | topoisomerase I is able to bind both iron and zinc in the C-terminal region in vivo, unlike the zinc-bound topoisomerase I, the iron-bound enzyme fails to relax the negatively supercoiled DNA. YrdD, the homologue of the topoisomerase I C-terminal region, can also bind both iron and zinc in vivo | Escherichia coli | |
Zn2+ | required. The zinc-bound YrdD has a strong binding affinity for single-stranded DNA and protects ssDNA from the DNase I digestion in vitro. Zinc-bound YrdD can protect ssDNA from the DNase I digestion | Escherichia coli |
Organism | UniProt | Comment | Textmining |
---|---|---|---|
Escherichia coli | - |
- |
- |
Subunits | Comment | Organism |
---|---|---|
More | the enzyme contains an N-terminal catalytic fragment of 67 kDa and a C-terminal zinc binding region of 30 kDa | Escherichia coli |
Synonyms | Comment | Organism |
---|---|---|
topoisomerase I homolog | - |
Escherichia coli |
YrdD | - |
Escherichia coli |
Temperature Optimum [°C] | Temperature Optimum Maximum [°C] | Comment | Organism |
---|---|---|---|
37 | - |
assay at | Escherichia coli |
pH Optimum Minimum | pH Optimum Maximum | Comment | Organism |
---|---|---|---|
8 | - |
assay at | Escherichia coli |
General Information | Comment | Organism |
---|---|---|
evolution | Escherichia coli topoisomerase I belongs to type I subfamily DNA topoisomerases. YrdD, a homolog of the C-terminal zinc binding region of Escherichia coli topoisomerase I, is highly conserved among proteobacteria and enterobacteria | Escherichia coli |
additional information | YrdD is a homologue of the C-terminal zinc binding region of Escherichia coli topoisomerase I. The enzyme contains an N-terminal catalytic fragment and a C-terminal zinc binding region. While the N-terminal fragment is sufficient for cleaving single-stranded DNA, the C-terminal region is required for relaxing the negatively supercoiled DNA and for interacting with RNA polymerase | Escherichia coli |