4U4C
The molecular architecture of the TRAMP complex reveals the organization and interplay of its two catalytic activities
Functional Information from GO Data
| Chain | GOid | namespace | contents |
| A | 0000166 | molecular_function | nucleotide binding |
| A | 0000292 | biological_process | RNA fragment catabolic process |
| A | 0000460 | biological_process | maturation of 5.8S rRNA |
| A | 0000467 | biological_process | exonucleolytic trimming to generate mature 3'-end of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) |
| A | 0003676 | molecular_function | nucleic acid binding |
| A | 0003723 | molecular_function | RNA binding |
| A | 0003724 | molecular_function | RNA helicase activity |
| A | 0003729 | molecular_function | mRNA binding |
| A | 0003824 | molecular_function | catalytic activity |
| A | 0004386 | molecular_function | helicase activity |
| A | 0005515 | molecular_function | protein binding |
| A | 0005524 | molecular_function | ATP binding |
| A | 0005634 | cellular_component | nucleus |
| A | 0005730 | cellular_component | nucleolus |
| A | 0006364 | biological_process | rRNA processing |
| A | 0006397 | biological_process | mRNA processing |
| A | 0006401 | biological_process | RNA catabolic process |
| A | 0008143 | molecular_function | poly(A) binding |
| A | 0016075 | biological_process | rRNA catabolic process |
| A | 0016491 | molecular_function | oxidoreductase activity |
| A | 0016787 | molecular_function | hydrolase activity |
| A | 0016887 | molecular_function | ATP hydrolysis activity |
| A | 0031499 | cellular_component | TRAMP complex |
| A | 0034458 | molecular_function | 3'-5' RNA helicase activity |
| A | 0034475 | biological_process | U4 snRNA 3'-end processing |
| A | 0034476 | biological_process | U5 snRNA 3'-end processing |
| A | 0071028 | biological_process | nuclear mRNA surveillance |
| A | 0071031 | biological_process | nuclear mRNA surveillance of mRNA 3'-end processing |
| A | 0071035 | biological_process | nuclear polyadenylation-dependent rRNA catabolic process |
| A | 0071038 | biological_process | TRAMP-dependent tRNA surveillance pathway |
| A | 0071042 | biological_process | nuclear polyadenylation-dependent mRNA catabolic process |
| A | 0071051 | biological_process | poly(A)-dependent snoRNA 3'-end processing |
Functional Information from PDB Data
| site_id | AC1 |
| Number of Residues | 3 |
| Details | binding site for residue SO4 A 1101 |
| Chain | Residue |
| A | ARG883 |
| A | ARG884 |
| A | ARG887 |
| site_id | AC2 |
| Number of Residues | 5 |
| Details | binding site for residue SO4 A 1102 |
| Chain | Residue |
| A | THR173 |
| A | GLY176 |
| A | LYS177 |
| A | THR178 |
| A | HOH1277 |
| site_id | AC3 |
| Number of Residues | 5 |
| Details | binding site for residue SO4 A 1103 |
| Chain | Residue |
| A | ARG883 |
| A | LYS886 |
| A | ARG890 |
| A | ASP899 |
| A | LYS864 |
| site_id | AC4 |
| Number of Residues | 3 |
| Details | binding site for residue SO4 A 1104 |
| Chain | Residue |
| A | ARG774 |
| A | ARG954 |
| B | THR15 |
| site_id | AC5 |
| Number of Residues | 1 |
| Details | binding site for residue SO4 A 1105 |
| Chain | Residue |
| A | LYS768 |
| site_id | AC6 |
| Number of Residues | 4 |
| Details | binding site for residue SO4 A 1106 |
| Chain | Residue |
| A | HIS476 |
| A | SER477 |
| A | THR502 |
| A | THR504 |
| site_id | AC7 |
| Number of Residues | 2 |
| Details | binding site for residue SO4 A 1107 |
| Chain | Residue |
| A | ARG887 |
| A | ARG890 |
| site_id | AC8 |
| Number of Residues | 1 |
| Details | binding site for residue EDO A 1108 |
| Chain | Residue |
| A | HIS647 |
| site_id | AC9 |
| Number of Residues | 3 |
| Details | binding site for residue EDO A 1109 |
| Chain | Residue |
| A | ALA214 |
| A | GLU215 |
| A | GLY217 |
| site_id | AD1 |
| Number of Residues | 2 |
| Details | binding site for residue CL A 1110 |
| Chain | Residue |
| A | LYS437 |
| A | HOH1402 |
| site_id | AD2 |
| Number of Residues | 2 |
| Details | binding site for residue CL A 1111 |
| Chain | Residue |
| A | LYS202 |
| A | ARG1026 |
| site_id | AD3 |
| Number of Residues | 7 |
| Details | binding site for residue PG4 A 1112 |
| Chain | Residue |
| A | GLU142 |
| A | LEU150 |
| A | ASP155 |
| A | GLY785 |
| A | THR789 |
| A | HOH1222 |
| A | HOH1399 |
| site_id | AD4 |
| Number of Residues | 5 |
| Details | binding site for residue PG4 A 1113 |
| Chain | Residue |
| A | GLY224 |
| A | THR227 |
| A | LYS1036 |
| A | HIS1062 |
| A | HOH1285 |
| site_id | AD5 |
| Number of Residues | 4 |
| Details | binding site for residue PEG A 1114 |
| Chain | Residue |
| A | PHE491 |
| A | GLY494 |
| A | PRO512 |
| A | ARG546 |
Functional Information from SwissProt/UniProt
| site_id | SWS_FT_FI1 |
| Number of Residues | 156 |
| Details | Domain: {"description":"Helicase ATP-binding","evidences":[{"source":"PROSITE-ProRule","id":"PRU00541","evidenceCode":"ECO:0000255"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI2 |
| Number of Residues | 204 |
| Details | Domain: {"description":"Helicase C-terminal","evidences":[{"source":"PROSITE-ProRule","id":"PRU00542","evidenceCode":"ECO:0000255"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI3 |
| Number of Residues | 3 |
| Details | Motif: {"description":"DEVH box"} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI4 |
| Number of Residues | 7 |
| Details | Binding site: {"evidences":[{"source":"PROSITE-ProRule","id":"PRU00541","evidenceCode":"ECO:0000255"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI5 |
| Number of Residues | 2 |
| Details | Modified residue: {"description":"Phosphoserine","evidences":[{"source":"PubMed","id":"18407956","evidenceCode":"ECO:0007744"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI6 |
| Number of Residues | 1 |
| Details | Modified residue: {"description":"Phosphoserine","evidences":[{"source":"PubMed","id":"17330950","evidenceCode":"ECO:0007744"},{"source":"PubMed","id":"18407956","evidenceCode":"ECO:0007744"},{"source":"PubMed","id":"19779198","evidenceCode":"ECO:0007744"}]} |
| Chain | Residue | Details |
