3EPH
Crystallographic snapshots of eukaryotic dimethylallyltransferase acting on tRNA: Insight into tRNA recognition and reaction mechanism
Functional Information from GO Data
| Chain | GOid | namespace | contents |
| A | 0000049 | molecular_function | tRNA binding |
| A | 0000166 | molecular_function | nucleotide binding |
| A | 0005524 | molecular_function | ATP binding |
| A | 0005634 | cellular_component | nucleus |
| A | 0005730 | cellular_component | nucleolus |
| A | 0005737 | cellular_component | cytoplasm |
| A | 0005739 | cellular_component | mitochondrion |
| A | 0005829 | cellular_component | cytosol |
| A | 0006400 | biological_process | tRNA modification |
| A | 0008033 | biological_process | tRNA processing |
| A | 0008270 | molecular_function | zinc ion binding |
| A | 0016740 | molecular_function | transferase activity |
| A | 0016765 | molecular_function | transferase activity, transferring alkyl or aryl (other than methyl) groups |
| A | 0046872 | molecular_function | metal ion binding |
| A | 0052381 | molecular_function | tRNA dimethylallyltransferase activity |
| B | 0000049 | molecular_function | tRNA binding |
| B | 0000166 | molecular_function | nucleotide binding |
| B | 0005524 | molecular_function | ATP binding |
| B | 0005634 | cellular_component | nucleus |
| B | 0005730 | cellular_component | nucleolus |
| B | 0005737 | cellular_component | cytoplasm |
| B | 0005739 | cellular_component | mitochondrion |
| B | 0005829 | cellular_component | cytosol |
| B | 0006400 | biological_process | tRNA modification |
| B | 0008033 | biological_process | tRNA processing |
| B | 0008270 | molecular_function | zinc ion binding |
| B | 0016740 | molecular_function | transferase activity |
| B | 0016765 | molecular_function | transferase activity, transferring alkyl or aryl (other than methyl) groups |
| B | 0046872 | molecular_function | metal ion binding |
| B | 0052381 | molecular_function | tRNA dimethylallyltransferase activity |
Functional Information from PDB Data
| site_id | AC1 |
| Number of Residues | 4 |
| Details | BINDING SITE FOR RESIDUE ZN A 1 |
| Chain | Residue |
| A | CYS375 |
| A | CYS378 |
| A | HIS397 |
| A | HIS403 |
| site_id | AC2 |
| Number of Residues | 2 |
| Details | BINDING SITE FOR RESIDUE MG A 2 |
| Chain | Residue |
| A | SER28 |
| A | PPV422 |
| site_id | AC3 |
| Number of Residues | 1 |
| Details | BINDING SITE FOR RESIDUE MG A 4 |
| Chain | Residue |
| A | HOH481 |
| site_id | AC4 |
| Number of Residues | 1 |
| Details | BINDING SITE FOR RESIDUE MG A 6 |
| Chain | Residue |
| A | GLN29 |
| site_id | AC5 |
| Number of Residues | 2 |
| Details | BINDING SITE FOR RESIDUE MG A 7 |
| Chain | Residue |
| A | HOH449 |
| A | TRP79 |
| site_id | AC6 |
| Number of Residues | 12 |
| Details | BINDING SITE FOR RESIDUE PPV A 422 |
| Chain | Residue |
| A | MG2 |
| A | THR23 |
| A | GLY24 |
| A | VAL25 |
| A | GLY26 |
| A | LYS27 |
| A | SER28 |
| A | GLN49 |
| A | ASN59 |
| A | ARG220 |
| A | HOH427 |
| A | HOH495 |
| site_id | AC7 |
| Number of Residues | 1 |
| Details | BINDING SITE FOR RESIDUE MG E 72 |
| Chain | Residue |
| E | G12 |
| site_id | AC8 |
| Number of Residues | 2 |
| Details | BINDING SITE FOR RESIDUE MG E 73 |
| Chain | Residue |
| E | HOH104 |
| E | HOH116 |
| site_id | AC9 |
| Number of Residues | 4 |
| Details | BINDING SITE FOR RESIDUE ZN B 1 |
| Chain | Residue |
| B | CYS375 |
| B | CYS378 |
| B | HIS397 |
| B | HIS403 |
| site_id | BC1 |
| Number of Residues | 4 |
| Details | BINDING SITE FOR RESIDUE MG B 2 |
| Chain | Residue |
| B | SER28 |
| B | PPV422 |
| B | HOH481 |
| B | HOH504 |
| site_id | BC2 |
| Number of Residues | 1 |
| Details | BINDING SITE FOR RESIDUE MG B 4 |
| Chain | Residue |
| B | GLN29 |
| site_id | BC3 |
| Number of Residues | 2 |
| Details | BINDING SITE FOR RESIDUE MG B 5 |
| Chain | Residue |
| B | HOH458 |
| B | HOH486 |
| site_id | BC4 |
| Number of Residues | 14 |
| Details | BINDING SITE FOR RESIDUE PPV B 422 |
| Chain | Residue |
| B | MG2 |
| B | THR23 |
| B | GLY24 |
| B | VAL25 |
| B | GLY26 |
| B | LYS27 |
| B | SER28 |
| B | GLN49 |
| B | ASN59 |
| B | ARG220 |
| B | HOH481 |
| B | HOH503 |
| B | HOH504 |
| B | HOH522 |
| site_id | BC5 |
| Number of Residues | 2 |
| Details | BINDING SITE FOR RESIDUE MG F 72 |
| Chain | Residue |
| B | HOH526 |
| F | G53 |
Functional Information from SwissProt/UniProt
| site_id | SWS_FT_FI1 |
| Number of Residues | 72 |
| Details | Zinc finger: {"description":"Matrin-type"} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI2 |
| Number of Residues | 54 |
| Details | Region: {"description":"Interaction with substrate tRNA","evidences":[{"source":"PubMed","id":"18852462","evidenceCode":"ECO:0000269"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI3 |
| Number of Residues | 16 |
| Details | Region: {"description":"Core aggregation region","evidences":[{"source":"PubMed","id":"18852462","evidenceCode":"ECO:0000269"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI4 |
| Number of Residues | 44 |
| Details | Region: {"description":"Interaction with isopentenylpyrophosphate transferase","evidences":[{"source":"PubMed","id":"18852462","evidenceCode":"ECO:0000269"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI5 |
| Number of Residues | 14 |
| Details | Binding site: {"evidences":[{"evidenceCode":"ECO:0000255"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI6 |
| Number of Residues | 10 |
| Details | Binding site: {"evidences":[{"source":"PubMed","id":"18852462","evidenceCode":"ECO:0000269"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI7 |
| Number of Residues | 8 |
| Details | Binding site: {"evidences":[{"source":"PubMed","id":"18852462","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"3EPH","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"3EPJ","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"3EPK","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"3EPL","evidenceCode":"ECO:0007744"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI8 |
| Number of Residues | 4 |
| Details | Site: {"description":"Interaction with substrate tRNA","evidences":[{"source":"PubMed","id":"18852462","evidenceCode":"ECO:0000269"}]} |
| Chain | Residue | Details |
