4YS8
Crystal Structure of 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase (IspD) from Burkholderia thailandensis
Functional Information from GO Data
| Chain | GOid | namespace | contents |
| A | 0003824 | molecular_function | catalytic activity |
| A | 0008299 | biological_process | isoprenoid biosynthetic process |
| A | 0016779 | molecular_function | nucleotidyltransferase activity |
| A | 0019288 | biological_process | isopentenyl diphosphate biosynthetic process, methylerythritol 4-phosphate pathway |
| A | 0050518 | molecular_function | 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase activity |
| A | 0070567 | molecular_function | cytidylyltransferase activity |
| B | 0003824 | molecular_function | catalytic activity |
| B | 0008299 | biological_process | isoprenoid biosynthetic process |
| B | 0016779 | molecular_function | nucleotidyltransferase activity |
| B | 0019288 | biological_process | isopentenyl diphosphate biosynthetic process, methylerythritol 4-phosphate pathway |
| B | 0050518 | molecular_function | 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase activity |
| B | 0070567 | molecular_function | cytidylyltransferase activity |
| C | 0003824 | molecular_function | catalytic activity |
| C | 0008299 | biological_process | isoprenoid biosynthetic process |
| C | 0016779 | molecular_function | nucleotidyltransferase activity |
| C | 0019288 | biological_process | isopentenyl diphosphate biosynthetic process, methylerythritol 4-phosphate pathway |
| C | 0050518 | molecular_function | 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase activity |
| C | 0070567 | molecular_function | cytidylyltransferase activity |
| D | 0003824 | molecular_function | catalytic activity |
| D | 0008299 | biological_process | isoprenoid biosynthetic process |
| D | 0016779 | molecular_function | nucleotidyltransferase activity |
| D | 0019288 | biological_process | isopentenyl diphosphate biosynthetic process, methylerythritol 4-phosphate pathway |
| D | 0050518 | molecular_function | 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase activity |
| D | 0070567 | molecular_function | cytidylyltransferase activity |
Functional Information from PDB Data
| site_id | AC1 |
| Number of Residues | 6 |
| Details | binding site for residue GOL A 301 |
| Chain | Residue |
| A | PRO116 |
| A | ALA117 |
| A | ARG120 |
| A | THR121 |
| A | HOH407 |
| A | HOH416 |
| site_id | AC2 |
| Number of Residues | 2 |
| Details | binding site for residue GOL A 302 |
| Chain | Residue |
| A | ASP43 |
| A | GLY69 |
| site_id | AC3 |
| Number of Residues | 3 |
| Details | binding site for residue GOL B 301 |
| Chain | Residue |
| B | GLY124 |
| B | LYS127 |
| B | ARG120 |
| site_id | AC4 |
| Number of Residues | 4 |
| Details | binding site for residue ACT B 302 |
| Chain | Residue |
| A | ASP141 |
| B | GLN164 |
| B | GLN166 |
| B | LEU211 |
| site_id | AC5 |
| Number of Residues | 5 |
| Details | binding site for residue GOL C 301 |
| Chain | Residue |
| C | ASP100 |
| C | ALA101 |
| C | ARG172 |
| C | GLY174 |
| C | MET175 |
| site_id | AC6 |
| Number of Residues | 3 |
| Details | binding site for residue GOL C 302 |
| Chain | Residue |
| C | ASP141 |
| C | GLN164 |
| D | GLN164 |
Functional Information from PROSITE/UniProt
| site_id | PS01295 |
| Number of Residues | 8 |
| Details | ISPD 4-diphosphocytidyl-2C-methyl-D-erythritol synthase signature. VLVHDAAR |
| Chain | Residue | Details |
| A | VAL104-ARG111 |
Functional Information from SwissProt/UniProt
| site_id | SWS_FT_FI1 |
| Number of Residues | 8 |
| Details | SITE: Transition state stabilizer => ECO:0000255|HAMAP-Rule:MF_00108 |
| Chain | Residue | Details |
| A | ARG17 | |
| A | LYS24 | |
| B | ARG17 | |
| B | LYS24 | |
| C | ARG17 | |
| C | LYS24 | |
| D | ARG17 | |
| D | LYS24 |
| site_id | SWS_FT_FI2 |
| Number of Residues | 8 |
| Details | SITE: Positions MEP for the nucleophilic attack => ECO:0000255|HAMAP-Rule:MF_00108 |
| Chain | Residue | Details |
| A | ARG159 | |
| A | LYS215 | |
| B | ARG159 | |
| B | LYS215 | |
| C | ARG159 | |
| C | LYS215 | |
| D | ARG159 | |
| D | LYS215 |
