8ORJ
Cryo-EM structure of human tRNA ligase RTCB in complex with human PYROXD1.
Functional Information from GO Data
| Chain | GOid | namespace | contents |
| A | 0000394 | biological_process | RNA splicing, via endonucleolytic cleavage and ligation |
| A | 0000968 | biological_process | tRNA exon ligation |
| A | 0003723 | molecular_function | RNA binding |
| A | 0005515 | molecular_function | protein binding |
| A | 0005634 | cellular_component | nucleus |
| A | 0005635 | cellular_component | nuclear envelope |
| A | 0005654 | cellular_component | nucleoplasm |
| A | 0005737 | cellular_component | cytoplasm |
| A | 0005789 | cellular_component | endoplasmic reticulum membrane |
| A | 0005829 | cellular_component | cytosol |
| A | 0006388 | biological_process | tRNA splicing, via endonucleolytic cleavage and ligation |
| A | 0006396 | biological_process | RNA processing |
| A | 0008452 | molecular_function | RNA ligase activity |
| A | 0016886 | molecular_function | ligase activity, forming phosphoric ester bonds |
| A | 0017166 | molecular_function | vinculin binding |
| A | 0036498 | biological_process | IRE1-mediated unfolded protein response |
| A | 0044600 | molecular_function | protein guanylyltransferase activity |
| A | 0070054 | biological_process | mRNA splicing, via endonucleolytic cleavage and ligation |
| A | 0072669 | cellular_component | tRNA-splicing ligase complex |
| A | 0170057 | molecular_function | RNA ligase (GTP) activity |
| A | 1902494 | cellular_component | catalytic complex |
| B | 0000968 | biological_process | tRNA exon ligation |
| B | 0003954 | molecular_function | NADH dehydrogenase activity |
| B | 0003959 | molecular_function | NADPH dehydrogenase activity |
| B | 0005515 | molecular_function | protein binding |
| B | 0005634 | cellular_component | nucleus |
| B | 0005737 | cellular_component | cytoplasm |
| B | 0005829 | cellular_component | cytosol |
| B | 0016174 | molecular_function | NAD(P)H oxidase H2O2-forming activity |
| B | 0016491 | molecular_function | oxidoreductase activity |
| B | 0030017 | cellular_component | sarcomere |
| B | 0034599 | biological_process | cellular response to oxidative stress |
| B | 0140299 | molecular_function | molecular sensor activity |
Functional Information from PROSITE/UniProt
| site_id | PS01288 |
| Number of Residues | 30 |
| Details | UPF0027 Uncharacterized protein family UPF0027 signature. QIgNvAaLPgIvhrsigLPDvHsGyGfaIG |
| Chain | Residue | Details |
| A | GLN68-GLY97 |
Functional Information from SwissProt/UniProt
| site_id | SWS_FT_FI1 |
| Number of Residues | 1 |
| Details | Active site: {"description":"GMP-histidine intermediate","evidences":[{"source":"HAMAP-Rule","id":"MF_03144","evidenceCode":"ECO:0000255"},{"source":"PubMed","id":"38493148","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"8ODO","evidenceCode":"ECO:0007744"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI2 |
| Number of Residues | 2 |
| Details | Binding site: {"evidences":[{"source":"PubMed","id":"38493148","evidenceCode":"ECO:0000305"},{"source":"PDB","id":"8ODO","evidenceCode":"ECO:0007744"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI3 |
| Number of Residues | 2 |
| Details | Binding site: {"evidences":[{"source":"HAMAP-Rule","id":"MF_03144","evidenceCode":"ECO:0000255"},{"source":"PubMed","id":"38493148","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"8ODP","evidenceCode":"ECO:0007744"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI4 |
| Number of Residues | 1 |
| Details | Binding site: {"evidences":[{"source":"PubMed","id":"38493148","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"8BTT","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"8ODO","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"8ODP","evidenceCode":"ECO:0007744"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI5 |
| Number of Residues | 9 |
| Details | Binding site: {"evidences":[{"source":"PubMed","id":"38493148","evidenceCode":"ECO:0000305"},{"source":"PDB","id":"8ODP","evidenceCode":"ECO:0007744"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI6 |
| Number of Residues | 2 |
| Details | Binding site: {"evidences":[{"source":"HAMAP-Rule","id":"MF_03144","evidenceCode":"ECO:0000255"},{"source":"PubMed","id":"38493148","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"8BTT","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"8ODO","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"8ODP","evidenceCode":"ECO:0007744"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI7 |
| Number of Residues | 1 |
| Details | Modified residue: {"description":"Phosphoserine","evidences":[{"source":"PubMed","id":"23186163","evidenceCode":"ECO:0007744"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI8 |
| Number of Residues | 2 |
| Details | Cross-link: {"description":"Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2)","evidences":[{"source":"PubMed","id":"28112733","evidenceCode":"ECO:0007744"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI9 |
| Number of Residues | 3 |
| Details | Region: {"description":"C-terminal domain; interacts with and shields the RTCB catalytic center","evidences":[{"source":"PubMed","id":"40069351","evidenceCode":"ECO:0000269"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI10 |
| Number of Residues | 13 |
| Details | Binding site: {"evidences":[{"source":"PubMed","id":"40069351","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"8ORJ","evidenceCode":"ECO:0007744"}]} |
| Chain | Residue | Details |
