3Q80
Structure of Mtb 2-C-methyl-D-erythritol 4-phosphate cytidyltransferase (IspD) Complexed with CDP-ME
Functional Information from GO Data
| Chain | GOid | namespace | contents |
| A | 0000287 | molecular_function | magnesium ion binding |
| A | 0002135 | molecular_function | CTP binding |
| A | 0003824 | molecular_function | catalytic activity |
| A | 0005515 | molecular_function | protein binding |
| A | 0005886 | cellular_component | plasma membrane |
| A | 0008270 | molecular_function | zinc ion binding |
| A | 0008299 | biological_process | isoprenoid biosynthetic process |
| A | 0016114 | biological_process | terpenoid biosynthetic process |
| A | 0016779 | molecular_function | nucleotidyltransferase activity |
| A | 0019288 | biological_process | isopentenyl diphosphate biosynthetic process, methylerythritol 4-phosphate pathway |
| A | 0030145 | molecular_function | manganese ion binding |
| A | 0050518 | molecular_function | 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase activity |
| A | 0051484 | biological_process | isopentenyl diphosphate biosynthetic process, methylerythritol 4-phosphate pathway involved in terpenoid biosynthetic process |
| A | 0070567 | molecular_function | cytidylyltransferase activity |
| B | 0000287 | molecular_function | magnesium ion binding |
| B | 0002135 | molecular_function | CTP binding |
| B | 0003824 | molecular_function | catalytic activity |
| B | 0005515 | molecular_function | protein binding |
| B | 0005886 | cellular_component | plasma membrane |
| B | 0008270 | molecular_function | zinc ion binding |
| B | 0008299 | biological_process | isoprenoid biosynthetic process |
| B | 0016114 | biological_process | terpenoid biosynthetic process |
| B | 0016779 | molecular_function | nucleotidyltransferase activity |
| B | 0019288 | biological_process | isopentenyl diphosphate biosynthetic process, methylerythritol 4-phosphate pathway |
| B | 0030145 | molecular_function | manganese ion binding |
| B | 0050518 | molecular_function | 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase activity |
| B | 0051484 | biological_process | isopentenyl diphosphate biosynthetic process, methylerythritol 4-phosphate pathway involved in terpenoid biosynthetic process |
| B | 0070567 | molecular_function | cytidylyltransferase activity |
Functional Information from PDB Data
| site_id | AC1 |
| Number of Residues | 32 |
| Details | BINDING SITE FOR RESIDUE CDM A 500 |
| Chain | Residue |
| A | PRO13 |
| A | THR86 |
| A | ASP107 |
| A | ALA108 |
| A | ALA109 |
| A | ARG110 |
| A | VAL163 |
| A | THR191 |
| A | ASP192 |
| A | LYS215 |
| A | MG232 |
| A | ALA14 |
| A | HOH265 |
| A | HOH269 |
| A | HOH328 |
| A | HOH385 |
| A | HOH386 |
| A | HOH388 |
| A | HOH391 |
| A | HOH399 |
| A | HOH404 |
| A | HOH414 |
| A | ALA15 |
| B | ASP140 |
| B | THR141 |
| B | ARG157 |
| A | GLY16 |
| A | LYS27 |
| A | GLY80 |
| A | SER81 |
| A | ASN82 |
| A | ARG83 |
| site_id | AC2 |
| Number of Residues | 5 |
| Details | BINDING SITE FOR RESIDUE MG A 232 |
| Chain | Residue |
| A | HOH328 |
| A | HOH385 |
| A | HOH386 |
| A | HOH414 |
| A | CDM500 |
| site_id | AC3 |
| Number of Residues | 6 |
| Details | BINDING SITE FOR RESIDUE CL A 233 |
| Chain | Residue |
| A | GLY16 |
| A | SER17 |
| A | GLY18 |
| A | HOH386 |
| A | HOH403 |
| A | HOH404 |
| site_id | AC4 |
| Number of Residues | 4 |
| Details | BINDING SITE FOR RESIDUE CL A 234 |
| Chain | Residue |
| A | SER17 |
| A | GLU19 |
| A | ARG20 |
| A | HOH328 |
| site_id | AC5 |
| Number of Residues | 33 |
| Details | BINDING SITE FOR RESIDUE CDM B 501 |
| Chain | Residue |
| A | ASP140 |
| A | THR141 |
| A | ARG157 |
| A | HOH336 |
| A | HOH382 |
| B | PRO13 |
| B | ALA14 |
| B | ALA15 |
| B | GLY16 |
| B | LYS27 |
| B | GLY80 |
| B | SER81 |
| B | ASN82 |
| B | ARG83 |
| B | THR86 |
| B | ASP107 |
| B | ALA108 |
| B | ALA109 |
| B | ARG110 |
| B | VAL163 |
| B | THR165 |
| B | THR191 |
| B | LYS215 |
| B | MG232 |
| B | CL233 |
| B | HOH253 |
| B | HOH274 |
| B | HOH343 |
| B | HOH380 |
| B | HOH390 |
| B | HOH391 |
| B | HOH392 |
| B | HOH394 |
| site_id | AC6 |
| Number of Residues | 6 |
| Details | BINDING SITE FOR RESIDUE MG B 232 |
| Chain | Residue |
| B | HOH278 |
| B | HOH390 |
| B | HOH391 |
| B | HOH392 |
| B | HOH394 |
| B | CDM501 |
| site_id | AC7 |
| Number of Residues | 6 |
| Details | BINDING SITE FOR RESIDUE CL B 233 |
| Chain | Residue |
| B | GLY16 |
| B | SER17 |
| B | GLY18 |
| B | LYS27 |
| B | HOH390 |
| B | CDM501 |
| site_id | AC8 |
| Number of Residues | 6 |
| Details | BINDING SITE FOR RESIDUE CL B 234 |
| Chain | Residue |
| B | GLY18 |
| B | GLU19 |
| B | ARG20 |
| B | LEU21 |
| B | LYS27 |
| B | HOH381 |
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 | VAL103-ARG110 |
Functional Information from SwissProt/UniProt
| site_id | SWS_FT_FI1 |
| Number of Residues | 4 |
| Details | SITE: Transition state stabilizer => ECO:0000255|HAMAP-Rule:MF_00108 |
| Chain | Residue | Details |
| A | ARG20 | |
| A | LYS27 | |
| B | ARG20 | |
| B | LYS27 |
| site_id | SWS_FT_FI2 |
| Number of Residues | 4 |
| Details | SITE: Positions MEP for the nucleophilic attack => ECO:0000255|HAMAP-Rule:MF_00108 |
| Chain | Residue | Details |
| A | ARG157 | |
| A | LYS215 | |
| B | ARG157 | |
| B | LYS215 |
