6GAV
Extremely 'open' clamp structure of DNA gyrase: role of the Corynebacteriales GyrB specific insert
Functional Information from GO Data
| Chain | GOid | namespace | contents |
| A | 0000166 | molecular_function | nucleotide binding |
| A | 0000287 | molecular_function | magnesium ion binding |
| A | 0003677 | molecular_function | DNA binding |
| A | 0003916 | molecular_function | DNA topoisomerase activity |
| A | 0003918 | molecular_function | DNA topoisomerase type II (double strand cut, ATP-hydrolyzing) activity |
| A | 0005515 | molecular_function | protein binding |
| A | 0005524 | molecular_function | ATP binding |
| A | 0005694 | cellular_component | chromosome |
| A | 0005737 | cellular_component | cytoplasm |
| A | 0005886 | cellular_component | plasma membrane |
| A | 0006259 | biological_process | DNA metabolic process |
| A | 0006261 | biological_process | DNA-templated DNA replication |
| A | 0006265 | biological_process | DNA topological change |
| A | 0009274 | cellular_component | peptidoglycan-based cell wall |
| A | 0016853 | molecular_function | isomerase activity |
| A | 0034335 | molecular_function | DNA negative supercoiling activity |
| A | 0046677 | biological_process | response to antibiotic |
| A | 0046872 | molecular_function | metal ion binding |
| B | 0000166 | molecular_function | nucleotide binding |
| B | 0000287 | molecular_function | magnesium ion binding |
| B | 0003677 | molecular_function | DNA binding |
| B | 0003916 | molecular_function | DNA topoisomerase activity |
| B | 0003918 | molecular_function | DNA topoisomerase type II (double strand cut, ATP-hydrolyzing) activity |
| B | 0005515 | molecular_function | protein binding |
| B | 0005524 | molecular_function | ATP binding |
| B | 0005694 | cellular_component | chromosome |
| B | 0005737 | cellular_component | cytoplasm |
| B | 0005886 | cellular_component | plasma membrane |
| B | 0006259 | biological_process | DNA metabolic process |
| B | 0006261 | biological_process | DNA-templated DNA replication |
| B | 0006265 | biological_process | DNA topological change |
| B | 0009274 | cellular_component | peptidoglycan-based cell wall |
| B | 0016853 | molecular_function | isomerase activity |
| B | 0034335 | molecular_function | DNA negative supercoiling activity |
| B | 0046677 | biological_process | response to antibiotic |
| B | 0046872 | molecular_function | metal ion binding |
Functional Information from PDB Data
| site_id | AC1 |
| Number of Residues | 9 |
| Details | binding site for residue MES A 1601 |
| Chain | Residue |
| A | GLY1047 |
| A | LEU1048 |
| A | LYS1049 |
| A | HIS1052 |
| A | LEU1109 |
| A | ASN1172 |
| A | GLY1177 |
| A | SER1178 |
| A | GLY1179 |
| site_id | AC2 |
| Number of Residues | 5 |
| Details | binding site for residue MES A 1602 |
| Chain | Residue |
| A | ASP1061 |
| A | SER1062 |
| A | GLU1079 |
| A | ASN1083 |
| A | ARG1159 |
| site_id | AC3 |
| Number of Residues | 10 |
| Details | binding site for residue MES A 1603 |
| Chain | Residue |
| A | PRO1119 |
| A | GLY1120 |
| A | HIS1280 |
| A | ASP1304 |
| A | SER1306 |
| A | SER1307 |
| A | ASP1308 |
| A | GLY1311 |
| B | LYS468 |
| B | SER469 |
| site_id | AC4 |
| Number of Residues | 10 |
| Details | binding site for residue MES B 1601 |
| Chain | Residue |
| B | GLY1047 |
| B | LEU1048 |
| B | LYS1049 |
| B | HIS1052 |
| B | ARG1098 |
| B | LEU1109 |
| B | ASN1172 |
| B | GLY1177 |
| B | SER1178 |
| B | GLY1179 |
| site_id | AC5 |
| Number of Residues | 6 |
| Details | binding site for residue MES B 1602 |
| Chain | Residue |
| B | ASP1061 |
| B | SER1062 |
| B | GLU1079 |
| B | ASN1083 |
| B | ARG1159 |
| B | VAL1160 |
Functional Information from PROSITE/UniProt
| site_id | PS00177 |
| Number of Residues | 9 |
| Details | TOPOISOMERASE_II DNA topoisomerase II signature. VVEGDSAGG |
| Chain | Residue | Details |
| A | VAL457-GLY465 |
Functional Information from SwissProt/UniProt
| site_id | SWS_FT_FI1 |
| Number of Residues | 228 |
| Details | Domain: {"description":"Toprim","evidences":[{"source":"HAMAP-Rule","id":"MF_01898","evidenceCode":"ECO:0000255"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI2 |
| Number of Residues | 6 |
| Details | Binding site: {"evidences":[{"source":"HAMAP-Rule","id":"MF_01898","evidenceCode":"ECO:0000255"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI3 |
| Number of Residues | 4 |
| Details | Site: {"description":"Interaction with DNA","evidences":[{"source":"HAMAP-Rule","id":"MF_01898","evidenceCode":"ECO:0000255"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI4 |
| Number of Residues | 12 |
| Details | Binding site: {"evidences":[{"source":"PubMed","id":"24015710","evidenceCode":"ECO:0000269"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI5 |
| Number of Residues | 2 |
| Details | Active site: {"description":"O-(5'-phospho-DNA)-tyrosine intermediate","evidences":[{"source":"HAMAP-Rule","id":"MF_01897","evidenceCode":"ECO:0000255"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI6 |
| Number of Residues | 2 |
| Details | Modified residue: {"description":"N-acetylthreonine","evidences":[{"source":"PubMed","id":"21969609","evidenceCode":"ECO:0007744"}]} |
| Chain | Residue | Details |
