3ZQ4
Unusual, dual endo- and exo-nuclease activity in the degradosome explained by crystal structure analysis of RNase J1
Functional Information from GO Data
| Chain | GOid | namespace | contents |
| A | 0003723 | molecular_function | RNA binding |
| A | 0004518 | molecular_function | nuclease activity |
| A | 0004519 | molecular_function | endonuclease activity |
| A | 0004521 | molecular_function | RNA endonuclease activity |
| A | 0004527 | molecular_function | exonuclease activity |
| A | 0004532 | molecular_function | RNA exonuclease activity |
| A | 0004534 | molecular_function | 5'-3' RNA exonuclease activity |
| A | 0005515 | molecular_function | protein binding |
| A | 0005737 | cellular_component | cytoplasm |
| A | 0006364 | biological_process | rRNA processing |
| A | 0006396 | biological_process | RNA processing |
| A | 0006397 | biological_process | mRNA processing |
| A | 0008270 | molecular_function | zinc ion binding |
| A | 0008409 | molecular_function | 5'-3' exonuclease activity |
| A | 0016787 | molecular_function | hydrolase activity |
| A | 0042802 | molecular_function | identical protein binding |
| A | 0046872 | molecular_function | metal ion binding |
| C | 0003723 | molecular_function | RNA binding |
| C | 0004518 | molecular_function | nuclease activity |
| C | 0004519 | molecular_function | endonuclease activity |
| C | 0004521 | molecular_function | RNA endonuclease activity |
| C | 0004527 | molecular_function | exonuclease activity |
| C | 0004532 | molecular_function | RNA exonuclease activity |
| C | 0004534 | molecular_function | 5'-3' RNA exonuclease activity |
| C | 0005515 | molecular_function | protein binding |
| C | 0005737 | cellular_component | cytoplasm |
| C | 0006364 | biological_process | rRNA processing |
| C | 0006396 | biological_process | RNA processing |
| C | 0006397 | biological_process | mRNA processing |
| C | 0008270 | molecular_function | zinc ion binding |
| C | 0008409 | molecular_function | 5'-3' exonuclease activity |
| C | 0016787 | molecular_function | hydrolase activity |
| C | 0042802 | molecular_function | identical protein binding |
| C | 0046872 | molecular_function | metal ion binding |
| D | 0003723 | molecular_function | RNA binding |
| D | 0004518 | molecular_function | nuclease activity |
| D | 0004519 | molecular_function | endonuclease activity |
| D | 0004521 | molecular_function | RNA endonuclease activity |
| D | 0004527 | molecular_function | exonuclease activity |
| D | 0004532 | molecular_function | RNA exonuclease activity |
| D | 0004534 | molecular_function | 5'-3' RNA exonuclease activity |
| D | 0005515 | molecular_function | protein binding |
| D | 0005737 | cellular_component | cytoplasm |
| D | 0006364 | biological_process | rRNA processing |
| D | 0006396 | biological_process | RNA processing |
| D | 0006397 | biological_process | mRNA processing |
| D | 0008270 | molecular_function | zinc ion binding |
| D | 0008409 | molecular_function | 5'-3' exonuclease activity |
| D | 0016787 | molecular_function | hydrolase activity |
| D | 0042802 | molecular_function | identical protein binding |
| D | 0046872 | molecular_function | metal ion binding |
| E | 0003723 | molecular_function | RNA binding |
| E | 0004518 | molecular_function | nuclease activity |
| E | 0004519 | molecular_function | endonuclease activity |
| E | 0004521 | molecular_function | RNA endonuclease activity |
| E | 0004527 | molecular_function | exonuclease activity |
| E | 0004532 | molecular_function | RNA exonuclease activity |
| E | 0004534 | molecular_function | 5'-3' RNA exonuclease activity |
| E | 0005515 | molecular_function | protein binding |
| E | 0005737 | cellular_component | cytoplasm |
| E | 0006364 | biological_process | rRNA processing |
| E | 0006396 | biological_process | RNA processing |
| E | 0006397 | biological_process | mRNA processing |
| E | 0008270 | molecular_function | zinc ion binding |
| E | 0008409 | molecular_function | 5'-3' exonuclease activity |
| E | 0016787 | molecular_function | hydrolase activity |
| E | 0042802 | molecular_function | identical protein binding |
| E | 0046872 | molecular_function | metal ion binding |
Functional Information from PDB Data
| site_id | AC1 |
| Number of Residues | 5 |
| Details | BINDING SITE FOR RESIDUE ZN A 1556 |
| Chain | Residue |
| A | ASP78 |
| A | HIS79 |
| A | ASP164 |
| A | HIS390 |
| A | ZN1557 |
| site_id | AC2 |
| Number of Residues | 5 |
| Details | BINDING SITE FOR RESIDUE ZN A 1557 |
| Chain | Residue |
| A | ZN1556 |
| A | HIS74 |
| A | HIS76 |
| A | HIS142 |
| A | ASP164 |
| site_id | AC3 |
| Number of Residues | 4 |
| Details | BINDING SITE FOR RESIDUE CA D 1556 |
| Chain | Residue |
| D | GLY49 |
| D | ASP51 |
| D | ASP443 |
| E | GLU464 |
| site_id | AC4 |
| Number of Residues | 2 |
| Details | BINDING SITE FOR RESIDUE CA A 1558 |
| Chain | Residue |
| A | GLY49 |
| A | ASP443 |
| site_id | AC5 |
| Number of Residues | 5 |
| Details | BINDING SITE FOR RESIDUE ZN C 1556 |
| Chain | Residue |
| C | ASP78 |
| C | HIS79 |
| C | ASP164 |
| C | HIS390 |
| C | ZN1557 |
| site_id | AC6 |
| Number of Residues | 5 |
| Details | BINDING SITE FOR RESIDUE ZN C 1557 |
| Chain | Residue |
| C | HIS74 |
| C | HIS76 |
| C | HIS142 |
| C | ASP164 |
| C | ZN1556 |
| site_id | AC7 |
| Number of Residues | 3 |
| Details | BINDING SITE FOR RESIDUE CA C 1558 |
| Chain | Residue |
| C | GLY49 |
| C | ASP51 |
| C | ASP443 |
| site_id | AC8 |
| Number of Residues | 5 |
| Details | BINDING SITE FOR RESIDUE ZN D 1557 |
| Chain | Residue |
| D | ASP78 |
| D | HIS79 |
| D | ASP164 |
| D | HIS390 |
| D | ZN1558 |
| site_id | AC9 |
| Number of Residues | 5 |
| Details | BINDING SITE FOR RESIDUE ZN D 1558 |
| Chain | Residue |
| D | HIS74 |
| D | HIS76 |
| D | HIS142 |
| D | ASP164 |
| D | ZN1557 |
| site_id | BC1 |
| Number of Residues | 5 |
| Details | BINDING SITE FOR RESIDUE ZN E 1556 |
| Chain | Residue |
| E | ASP78 |
| E | HIS79 |
| E | ASP164 |
| E | HIS390 |
| E | ZN1557 |
| site_id | BC2 |
| Number of Residues | 6 |
| Details | BINDING SITE FOR RESIDUE ZN E 1557 |
| Chain | Residue |
| E | HIS74 |
| E | HIS76 |
| E | HIS79 |
| E | HIS142 |
| E | ASP164 |
| E | ZN1556 |
| site_id | BC3 |
| Number of Residues | 3 |
| Details | BINDING SITE FOR RESIDUE CA E 1558 |
| Chain | Residue |
| D | GLU464 |
| E | GLY49 |
| E | ASP443 |
Functional Information from PROSITE/UniProt
| site_id | PS01292 |
| Number of Residues | 29 |
| Details | UPF0036 Uncharacterized protein family UPF0036 signature. HtSGHGgqeEqklMlrlikPkffMPiHGE |
| Chain | Residue | Details |
| A | HIS364-GLU392 |
Functional Information from SwissProt/UniProt
| site_id | SWS_FT_FI1 |
| Number of Residues | 105 |
| Details | Region: {"description":"Required for endo- and 5'-exonuclease activity and dimerization"} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI2 |
| Number of Residues | 4 |
| Details | Active site: {"description":"Proton donor","evidences":[{"source":"PubMed","id":"21893285","evidenceCode":"ECO:0000305"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI3 |
| Number of Residues | 4 |
| Details | Active site: {"description":"Proton acceptor","evidences":[{"source":"PubMed","id":"21893285","evidenceCode":"ECO:0000305"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI4 |
| Number of Residues | 40 |
| Details | Binding site: {} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI5 |
| Number of Residues | 16 |
| Details | Binding site: {"evidences":[{"source":"HAMAP-Rule","id":"MF_01491","evidenceCode":"ECO:0000255"}]} |
| Chain | Residue | Details |
