2C5U
T4 RNA Ligase (Rnl1) Crystal Structure
Functional Information from GO Data
| Chain | GOid | namespace | contents |
| A | 0000166 | molecular_function | nucleotide binding |
| A | 0003972 | molecular_function | RNA ligase (ATP) activity |
| A | 0005524 | molecular_function | ATP binding |
| A | 0016874 | molecular_function | ligase activity |
| A | 0042245 | biological_process | RNA repair |
| A | 0046872 | molecular_function | metal ion binding |
| A | 0098004 | biological_process | virus tail fiber assembly |
| B | 0000166 | molecular_function | nucleotide binding |
| B | 0003972 | molecular_function | RNA ligase (ATP) activity |
| B | 0005524 | molecular_function | ATP binding |
| B | 0016874 | molecular_function | ligase activity |
| B | 0042245 | biological_process | RNA repair |
| B | 0046872 | molecular_function | metal ion binding |
| B | 0098004 | biological_process | virus tail fiber assembly |
Functional Information from PDB Data
| site_id | AC1 |
| Number of Residues | 7 |
| Details | BINDING SITE FOR RESIDUE CA A 1376 |
| Chain | Residue |
| A | APC1375 |
| A | HOH2047 |
| A | HOH2147 |
| A | HOH2193 |
| A | HOH2276 |
| A | HOH2277 |
| A | HOH2369 |
| site_id | AC2 |
| Number of Residues | 6 |
| Details | BINDING SITE FOR RESIDUE MG A 1377 |
| Chain | Residue |
| A | APC1375 |
| A | HOH2305 |
| A | HOH2306 |
| A | HOH2309 |
| A | GLY269 |
| A | ASP272 |
| site_id | AC3 |
| Number of Residues | 4 |
| Details | BINDING SITE FOR RESIDUE CL A 1378 |
| Chain | Residue |
| A | ARG54 |
| A | LEU104 |
| A | APC1375 |
| A | HOH2369 |
| site_id | AC4 |
| Number of Residues | 1 |
| Details | BINDING SITE FOR RESIDUE CL A 1379 |
| Chain | Residue |
| A | ALA27 |
| site_id | AC5 |
| Number of Residues | 6 |
| Details | BINDING SITE FOR RESIDUE MG B 1376 |
| Chain | Residue |
| B | GLY269 |
| B | ASP272 |
| B | APC1375 |
| B | HOH2304 |
| B | HOH2355 |
| B | HOH2357 |
| site_id | AC6 |
| Number of Residues | 7 |
| Details | BINDING SITE FOR RESIDUE CA B 1377 |
| Chain | Residue |
| B | APC1375 |
| B | HOH2058 |
| B | HOH2154 |
| B | HOH2197 |
| B | HOH2275 |
| B | HOH2276 |
| B | HOH2354 |
| site_id | AC7 |
| Number of Residues | 6 |
| Details | BINDING SITE FOR RESIDUE CA B 1378 |
| Chain | Residue |
| A | ASP212 |
| A | HOH2250 |
| B | ILE211 |
| B | ASP212 |
| B | HOH2142 |
| B | HOH2254 |
| site_id | AC8 |
| Number of Residues | 7 |
| Details | BINDING SITE FOR RESIDUE CA B 1379 |
| Chain | Residue |
| A | ILE211 |
| A | ASP212 |
| A | HOH2135 |
| A | HOH2247 |
| A | HOH2252 |
| B | ASP212 |
| B | HOH2258 |
| site_id | AC9 |
| Number of Residues | 4 |
| Details | BINDING SITE FOR RESIDUE CL B 1380 |
| Chain | Residue |
| B | ARG54 |
| B | LEU104 |
| B | APC1375 |
| B | HOH2354 |
| site_id | BC1 |
| Number of Residues | 25 |
| Details | BINDING SITE FOR RESIDUE APC A 1375 |
| Chain | Residue |
| A | TYR37 |
| A | ARG54 |
| A | MSE73 |
| A | LYS75 |
| A | PHE76 |
| A | THR98 |
| A | LYS99 |
| A | GLU100 |
| A | LEU104 |
| A | LYS119 |
| A | GLU159 |
| A | LEU179 |
| A | VAL230 |
| A | LYS240 |
| A | LYS242 |
| A | ASP272 |
| A | CA1376 |
| A | MG1377 |
| A | CL1378 |
| A | HOH2305 |
| A | HOH2306 |
| A | HOH2309 |
| A | HOH2370 |
| A | HOH2371 |
| A | HOH2372 |
| site_id | BC2 |
| Number of Residues | 25 |
| Details | BINDING SITE FOR RESIDUE APC B 1375 |
| Chain | Residue |
| B | TYR37 |
| B | ARG54 |
| B | MSE73 |
| B | LYS75 |
| B | PHE76 |
| B | LEU97 |
| B | THR98 |
| B | LYS99 |
| B | GLU100 |
| B | LEU104 |
| B | LYS119 |
| B | GLU159 |
| B | LEU179 |
| B | VAL230 |
| B | LYS240 |
| B | LYS242 |
| B | ASP272 |
| B | MG1376 |
| B | CA1377 |
| B | CL1380 |
| B | HOH2119 |
| B | HOH2304 |
| B | HOH2355 |
| B | HOH2356 |
| B | HOH2357 |
Functional Information from SwissProt/UniProt
| site_id | SWS_FT_FI1 |
| Number of Residues | 2 |
| Details | Active site: {"description":"N6-AMP-lysine intermediate","evidences":[{"source":"HAMAP-Rule","id":"MF_04149","evidenceCode":"ECO:0000255"},{"source":"PubMed","id":"3882425","evidenceCode":"ECO:0000269"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI2 |
| Number of Residues | 12 |
| Details | Binding site: {"evidences":[{"source":"HAMAP-Rule","id":"MF_04149","evidenceCode":"ECO:0000255"},{"source":"PubMed","id":"28223499","evidenceCode":"ECO:0000269"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI3 |
| Number of Residues | 2 |
| Details | Binding site: {"evidences":[{"source":"HAMAP-Rule","id":"MF_04149","evidenceCode":"ECO:0000255"},{"source":"PubMed","id":"16263720","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"28223499","evidenceCode":"ECO:0000269"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI4 |
| Number of Residues | 4 |
| Details | Site: {"description":"Essential for RNA ligase activity","evidences":[{"source":"HAMAP-Rule","id":"MF_04149","evidenceCode":"ECO:0000255"},{"source":"PubMed","id":"17068206","evidenceCode":"ECO:0000269"}]} |
| Chain | Residue | Details |
