1VH8
Crystal structure of a 2C-methyl-D-erythritol 2,4-cyclodiphosphate synthase
Functional Information from GO Data
| Chain | GOid | namespace | contents |
| A | 0008299 | biological_process | isoprenoid biosynthetic process |
| A | 0008685 | molecular_function | 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase activity |
| A | 0016114 | biological_process | terpenoid biosynthetic process |
| A | 0016829 | molecular_function | lyase activity |
| A | 0019288 | biological_process | isopentenyl diphosphate biosynthetic process, methylerythritol 4-phosphate pathway |
| A | 0046872 | molecular_function | metal ion binding |
| B | 0008299 | biological_process | isoprenoid biosynthetic process |
| B | 0008685 | molecular_function | 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase activity |
| B | 0016114 | biological_process | terpenoid biosynthetic process |
| B | 0016829 | molecular_function | lyase activity |
| B | 0019288 | biological_process | isopentenyl diphosphate biosynthetic process, methylerythritol 4-phosphate pathway |
| B | 0046872 | molecular_function | metal ion binding |
| C | 0008299 | biological_process | isoprenoid biosynthetic process |
| C | 0008685 | molecular_function | 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase activity |
| C | 0016114 | biological_process | terpenoid biosynthetic process |
| C | 0016829 | molecular_function | lyase activity |
| C | 0019288 | biological_process | isopentenyl diphosphate biosynthetic process, methylerythritol 4-phosphate pathway |
| C | 0046872 | molecular_function | metal ion binding |
| D | 0008299 | biological_process | isoprenoid biosynthetic process |
| D | 0008685 | molecular_function | 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase activity |
| D | 0016114 | biological_process | terpenoid biosynthetic process |
| D | 0016829 | molecular_function | lyase activity |
| D | 0019288 | biological_process | isopentenyl diphosphate biosynthetic process, methylerythritol 4-phosphate pathway |
| D | 0046872 | molecular_function | metal ion binding |
| E | 0008299 | biological_process | isoprenoid biosynthetic process |
| E | 0008685 | molecular_function | 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase activity |
| E | 0016114 | biological_process | terpenoid biosynthetic process |
| E | 0016829 | molecular_function | lyase activity |
| E | 0019288 | biological_process | isopentenyl diphosphate biosynthetic process, methylerythritol 4-phosphate pathway |
| E | 0046872 | molecular_function | metal ion binding |
| F | 0008299 | biological_process | isoprenoid biosynthetic process |
| F | 0008685 | molecular_function | 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase activity |
| F | 0016114 | biological_process | terpenoid biosynthetic process |
| F | 0016829 | molecular_function | lyase activity |
| F | 0019288 | biological_process | isopentenyl diphosphate biosynthetic process, methylerythritol 4-phosphate pathway |
| F | 0046872 | molecular_function | metal ion binding |
Functional Information from PDB Data
| site_id | AC1 |
| Number of Residues | 12 |
| Details | BINDING SITE FOR RESIDUE POP A 169 |
| Chain | Residue |
| A | GLY139 |
| C | PHE140 |
| C | ARG143 |
| C | ACY169 |
| A | PHE140 |
| A | ARG143 |
| A | ACY170 |
| B | GLY139 |
| B | PHE140 |
| B | ARG143 |
| B | ACY169 |
| C | GLY139 |
| site_id | AC2 |
| Number of Residues | 12 |
| Details | BINDING SITE FOR RESIDUE POP D 169 |
| Chain | Residue |
| D | GLY139 |
| D | PHE140 |
| D | ARG143 |
| D | ACY170 |
| E | GLY139 |
| E | PHE140 |
| E | ARG143 |
| E | ACY169 |
| F | GLY139 |
| F | PHE140 |
| F | ARG143 |
| F | ACY169 |
| site_id | AC3 |
| Number of Residues | 5 |
| Details | BINDING SITE FOR RESIDUE ACY A 170 |
| Chain | Residue |
| A | PHE140 |
| A | THR141 |
| A | POP169 |
| B | ACY169 |
| C | ACY169 |
| site_id | AC4 |
| Number of Residues | 5 |
| Details | BINDING SITE FOR RESIDUE ACY B 169 |
| Chain | Residue |
| A | POP169 |
| A | ACY170 |
| B | PHE140 |
| B | THR141 |
| C | ACY169 |
| site_id | AC5 |
| Number of Residues | 7 |
| Details | BINDING SITE FOR RESIDUE ACY C 169 |
| Chain | Residue |
| A | POP169 |
| A | ACY170 |
| B | ACY169 |
| C | LEU138 |
| C | GLY139 |
| C | PHE140 |
| C | THR141 |
| site_id | AC6 |
| Number of Residues | 5 |
| Details | BINDING SITE FOR RESIDUE ACY D 170 |
| Chain | Residue |
| D | PHE140 |
| D | THR141 |
| D | POP169 |
| E | ACY169 |
| F | ACY169 |
| site_id | AC7 |
| Number of Residues | 4 |
| Details | BINDING SITE FOR RESIDUE ACY E 169 |
| Chain | Residue |
| D | POP169 |
| D | ACY170 |
| E | PHE140 |
| E | THR141 |
| site_id | AC8 |
| Number of Residues | 6 |
| Details | BINDING SITE FOR RESIDUE ACY F 169 |
| Chain | Residue |
| D | POP169 |
| D | ACY170 |
| F | THR135 |
| F | LEU138 |
| F | PHE140 |
| F | THR141 |
Functional Information from PROSITE/UniProt
| site_id | PS01350 |
| Number of Residues | 16 |
| Details | ISPF 2C-methyl-D-erythritol 2,4-cyclodiphosphate synthase signature. SDGDVAlHAltDAilG |
| Chain | Residue | Details |
| A | SER36-GLY51 |
Functional Information from SwissProt/UniProt
| site_id | SWS_FT_FI1 |
| Number of Residues | 54 |
| Details | BINDING: BINDING => ECO:0000255|HAMAP-Rule:MF_00107 |
| Chain | Residue | Details |
| A | ASP9 | |
| B | ASP9 | |
| B | HIS11 | |
| B | HIS35 | |
| B | HIS43 | |
| B | ASP57 | |
| B | PHE62 | |
| B | THR133 | |
| B | PHE140 | |
| B | ARG143 | |
| C | ASP9 | |
| A | HIS11 | |
| C | HIS11 | |
| C | HIS35 | |
| C | HIS43 | |
| C | ASP57 | |
| C | PHE62 | |
| C | THR133 | |
| C | PHE140 | |
| C | ARG143 | |
| D | ASP9 | |
| D | HIS11 | |
| A | HIS35 | |
| D | HIS35 | |
| D | HIS43 | |
| D | ASP57 | |
| D | PHE62 | |
| D | THR133 | |
| D | PHE140 | |
| D | ARG143 | |
| E | ASP9 | |
| E | HIS11 | |
| E | HIS35 | |
| A | HIS43 | |
| E | HIS43 | |
| E | ASP57 | |
| E | PHE62 | |
| E | THR133 | |
| E | PHE140 | |
| E | ARG143 | |
| F | ASP9 | |
| F | HIS11 | |
| F | HIS35 | |
| F | HIS43 | |
| A | ASP57 | |
| F | ASP57 | |
| F | PHE62 | |
| F | THR133 | |
| F | PHE140 | |
| F | ARG143 | |
| A | PHE62 | |
| A | THR133 | |
| A | PHE140 | |
| A | ARG143 |
| site_id | SWS_FT_FI2 |
| Number of Residues | 12 |
| Details | SITE: Transition state stabilizer => ECO:0000255|HAMAP-Rule:MF_00107 |
| Chain | Residue | Details |
| A | HIS35 | |
| E | THR134 | |
| F | HIS35 | |
| F | THR134 | |
| A | THR134 | |
| B | HIS35 | |
| B | THR134 | |
| C | HIS35 | |
| C | THR134 | |
| D | HIS35 | |
| D | THR134 | |
| E | HIS35 |
