7KMW
Crystal structure of IspD from Mycobacterium paratuberculosis
Functional Information from GO Data
| Chain | GOid | namespace | contents |
| A | 0003824 | molecular_function | catalytic activity |
| A | 0008299 | biological_process | isoprenoid biosynthetic process |
| A | 0016740 | molecular_function | transferase activity |
| 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 | 0016740 | molecular_function | transferase activity |
| 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 | 0016740 | molecular_function | transferase activity |
| 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 | 0016740 | molecular_function | transferase activity |
| 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 | 2 |
| Details | binding site for residue EDO A 301 |
| Chain | Residue |
| A | ARG141 |
| A | ASP228 |
| site_id | AC2 |
| Number of Residues | 4 |
| Details | binding site for residue EDO A 302 |
| Chain | Residue |
| A | THR209 |
| A | HIS217 |
| B | THR175 |
| D | HIS217 |
| site_id | AC3 |
| Number of Residues | 6 |
| Details | binding site for residue EDO A 303 |
| Chain | Residue |
| A | ASP179 |
| A | LEU181 |
| A | ARG182 |
| A | PRO158 |
| A | LEU159 |
| A | ARG178 |
| site_id | AC4 |
| Number of Residues | 6 |
| Details | binding site for residue EDO A 304 |
| Chain | Residue |
| A | ALA137 |
| A | ALA140 |
| A | ARG141 |
| A | GLN144 |
| A | HOH403 |
| A | HOH435 |
| site_id | AC5 |
| Number of Residues | 10 |
| Details | binding site for residue EDO B 301 |
| Chain | Residue |
| A | ALA165 |
| B | PRO176 |
| B | GLU177 |
| B | GLY180 |
| B | LEU181 |
| D | ALA201 |
| D | GLY202 |
| D | ALA203 |
| D | GLY204 |
| D | THR205 |
| site_id | AC6 |
| Number of Residues | 3 |
| Details | binding site for residue EDO C 301 |
| Chain | Residue |
| C | HIS160 |
| C | ASP161 |
| D | ASP161 |
| site_id | AC7 |
| Number of Residues | 4 |
| Details | binding site for residue EDO C 302 |
| Chain | Residue |
| C | THR236 |
| D | HIS160 |
| D | PRO229 |
| D | HOH535 |
| site_id | AC8 |
| Number of Residues | 5 |
| Details | binding site for residue EDO C 303 |
| Chain | Residue |
| C | ALA156 |
| C | ARG182 |
| C | VAL224 |
| C | VAL225 |
| C | ASP226 |
| site_id | AC9 |
| Number of Residues | 2 |
| Details | binding site for residue EDO C 304 |
| Chain | Residue |
| C | ASP70 |
| C | GLN96 |
| site_id | AD1 |
| Number of Residues | 6 |
| Details | binding site for residue EDO D 401 |
| Chain | Residue |
| B | LEU173 |
| C | LEU173 |
| D | GLU216 |
| D | GLY220 |
| D | HOH506 |
| D | HOH537 |
| site_id | AD2 |
| Number of Residues | 1 |
| Details | binding site for residue EDO D 402 |
| Chain | Residue |
| D | GLU177 |
| site_id | AD3 |
| Number of Residues | 6 |
| Details | binding site for residue EDO D 403 |
| Chain | Residue |
| C | ASP161 |
| C | THR162 |
| D | ASP128 |
| D | ARG131 |
| D | VAL184 |
| D | ASP210 |
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 | VAL124-ARG131 |
Functional Information from SwissProt/UniProt
| site_id | SWS_FT_FI1 |
| Number of Residues | 4 |
| Details | Site: {"description":"Transition state stabilizer","evidences":[{"source":"HAMAP-Rule","id":"MF_00108","evidenceCode":"ECO:0000255"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI2 |
| Number of Residues | 8 |
| Details | Site: {"description":"Positions MEP for the nucleophilic attack","evidences":[{"source":"HAMAP-Rule","id":"MF_00108","evidenceCode":"ECO:0000255"}]} |
| Chain | Residue | Details |
