4DPW
Crystal structure of Staphylococcus epidermidis D283A mevalonate diphosphate decarboxylase complexed with mevalonate diphosphate and ATPgS
Functional Information from GO Data
| Chain | GOid | namespace | contents |
| A | 0000166 | molecular_function | nucleotide binding |
| A | 0004163 | molecular_function | diphosphomevalonate decarboxylase activity |
| A | 0005524 | molecular_function | ATP binding |
| A | 0005829 | cellular_component | cytosol |
| A | 0006629 | biological_process | lipid metabolic process |
| A | 0008299 | biological_process | isoprenoid biosynthetic process |
| A | 0016829 | molecular_function | lyase activity |
| A | 0016831 | molecular_function | carboxy-lyase activity |
| A | 0019287 | biological_process | isopentenyl diphosphate biosynthetic process, mevalonate pathway |
| B | 0000166 | molecular_function | nucleotide binding |
| B | 0004163 | molecular_function | diphosphomevalonate decarboxylase activity |
| B | 0005524 | molecular_function | ATP binding |
| B | 0005829 | cellular_component | cytosol |
| B | 0006629 | biological_process | lipid metabolic process |
| B | 0008299 | biological_process | isoprenoid biosynthetic process |
| B | 0016829 | molecular_function | lyase activity |
| B | 0016831 | molecular_function | carboxy-lyase activity |
| B | 0019287 | biological_process | isopentenyl diphosphate biosynthetic process, mevalonate pathway |
| C | 0000166 | molecular_function | nucleotide binding |
| C | 0004163 | molecular_function | diphosphomevalonate decarboxylase activity |
| C | 0005524 | molecular_function | ATP binding |
| C | 0005829 | cellular_component | cytosol |
| C | 0006629 | biological_process | lipid metabolic process |
| C | 0008299 | biological_process | isoprenoid biosynthetic process |
| C | 0016829 | molecular_function | lyase activity |
| C | 0016831 | molecular_function | carboxy-lyase activity |
| C | 0019287 | biological_process | isopentenyl diphosphate biosynthetic process, mevalonate pathway |
| D | 0000166 | molecular_function | nucleotide binding |
| D | 0004163 | molecular_function | diphosphomevalonate decarboxylase activity |
| D | 0005524 | molecular_function | ATP binding |
| D | 0005829 | cellular_component | cytosol |
| D | 0006629 | biological_process | lipid metabolic process |
| D | 0008299 | biological_process | isoprenoid biosynthetic process |
| D | 0016829 | molecular_function | lyase activity |
| D | 0016831 | molecular_function | carboxy-lyase activity |
| D | 0019287 | biological_process | isopentenyl diphosphate biosynthetic process, mevalonate pathway |
| E | 0000166 | molecular_function | nucleotide binding |
| E | 0004163 | molecular_function | diphosphomevalonate decarboxylase activity |
| E | 0005524 | molecular_function | ATP binding |
| E | 0005829 | cellular_component | cytosol |
| E | 0006629 | biological_process | lipid metabolic process |
| E | 0008299 | biological_process | isoprenoid biosynthetic process |
| E | 0016829 | molecular_function | lyase activity |
| E | 0016831 | molecular_function | carboxy-lyase activity |
| E | 0019287 | biological_process | isopentenyl diphosphate biosynthetic process, mevalonate pathway |
| F | 0000166 | molecular_function | nucleotide binding |
| F | 0004163 | molecular_function | diphosphomevalonate decarboxylase activity |
| F | 0005524 | molecular_function | ATP binding |
| F | 0005829 | cellular_component | cytosol |
| F | 0006629 | biological_process | lipid metabolic process |
| F | 0008299 | biological_process | isoprenoid biosynthetic process |
| F | 0016829 | molecular_function | lyase activity |
| F | 0016831 | molecular_function | carboxy-lyase activity |
| F | 0019287 | biological_process | isopentenyl diphosphate biosynthetic process, mevalonate pathway |
| G | 0000166 | molecular_function | nucleotide binding |
| G | 0004163 | molecular_function | diphosphomevalonate decarboxylase activity |
| G | 0005524 | molecular_function | ATP binding |
| G | 0005829 | cellular_component | cytosol |
| G | 0006629 | biological_process | lipid metabolic process |
| G | 0008299 | biological_process | isoprenoid biosynthetic process |
| G | 0016829 | molecular_function | lyase activity |
| G | 0016831 | molecular_function | carboxy-lyase activity |
| G | 0019287 | biological_process | isopentenyl diphosphate biosynthetic process, mevalonate pathway |
| H | 0000166 | molecular_function | nucleotide binding |
| H | 0004163 | molecular_function | diphosphomevalonate decarboxylase activity |
| H | 0005524 | molecular_function | ATP binding |
| H | 0005829 | cellular_component | cytosol |
| H | 0006629 | biological_process | lipid metabolic process |
| H | 0008299 | biological_process | isoprenoid biosynthetic process |
| H | 0016829 | molecular_function | lyase activity |
| H | 0016831 | molecular_function | carboxy-lyase activity |
| H | 0019287 | biological_process | isopentenyl diphosphate biosynthetic process, mevalonate pathway |
Functional Information from PDB Data
| site_id | AC1 |
| Number of Residues | 19 |
| Details | BINDING SITE FOR RESIDUE AGS A 401 |
| Chain | Residue |
| A | THR43 |
| A | ALA105 |
| A | SER106 |
| A | SER107 |
| A | ALA110 |
| A | SER141 |
| A | LYS188 |
| A | SER192 |
| A | DP6402 |
| A | HOH517 |
| A | HOH520 |
| A | LEU60 |
| A | GLU69 |
| A | LYS72 |
| A | SER94 |
| A | ASN96 |
| A | ALA101 |
| A | GLY103 |
| A | LEU104 |
| site_id | AC2 |
| Number of Residues | 14 |
| Details | BINDING SITE FOR RESIDUE DP6 A 402 |
| Chain | Residue |
| A | ILE13 |
| A | ALA14 |
| A | LYS17 |
| A | TYR18 |
| A | LYS21 |
| A | SER107 |
| A | SER139 |
| A | GLY140 |
| A | SER141 |
| A | SER192 |
| A | ARG193 |
| A | ALA283 |
| A | AGS401 |
| A | HOH517 |
| site_id | AC3 |
| Number of Residues | 3 |
| Details | BINDING SITE FOR RESIDUE FMT A 403 |
| Chain | Residue |
| A | HIS10 |
| A | ASP39 |
| A | TYR42 |
| site_id | AC4 |
| Number of Residues | 18 |
| Details | BINDING SITE FOR RESIDUE AGS B 401 |
| Chain | Residue |
| B | THR43 |
| B | LEU60 |
| B | GLU69 |
| B | LYS72 |
| B | SER94 |
| B | ASN96 |
| B | THR100 |
| B | ALA101 |
| B | GLY103 |
| B | ALA105 |
| B | SER106 |
| B | SER107 |
| B | ALA110 |
| B | SER141 |
| B | LYS188 |
| B | SER192 |
| B | DP6402 |
| B | HOH501 |
| site_id | AC5 |
| Number of Residues | 12 |
| Details | BINDING SITE FOR RESIDUE DP6 B 402 |
| Chain | Residue |
| B | ALA14 |
| B | TYR18 |
| B | LYS21 |
| B | SER107 |
| B | SER139 |
| B | GLY140 |
| B | SER141 |
| B | SER192 |
| B | ARG193 |
| B | MET196 |
| B | ALA283 |
| B | AGS401 |
| site_id | AC6 |
| Number of Residues | 16 |
| Details | BINDING SITE FOR RESIDUE AGS C 401 |
| Chain | Residue |
| C | LEU60 |
| C | GLU69 |
| C | LYS72 |
| C | SER94 |
| C | ASN96 |
| C | THR100 |
| C | GLY103 |
| C | ALA105 |
| C | SER106 |
| C | SER107 |
| C | ALA110 |
| C | SER141 |
| C | LYS188 |
| C | SER192 |
| C | DP6402 |
| C | HOH510 |
| site_id | AC7 |
| Number of Residues | 13 |
| Details | BINDING SITE FOR RESIDUE DP6 C 402 |
| Chain | Residue |
| C | ALA14 |
| C | LYS17 |
| C | TYR18 |
| C | TRP19 |
| C | LYS21 |
| C | SER107 |
| C | SER139 |
| C | GLY140 |
| C | SER141 |
| C | SER192 |
| C | ARG193 |
| C | MET196 |
| C | AGS401 |
| site_id | AC8 |
| Number of Residues | 20 |
| Details | BINDING SITE FOR RESIDUE AGS D 401 |
| Chain | Residue |
| D | SER94 |
| D | ASN96 |
| D | ALA101 |
| D | GLY103 |
| D | LEU104 |
| D | ALA105 |
| D | SER106 |
| D | SER107 |
| D | ALA110 |
| D | SER141 |
| D | LYS188 |
| D | SER192 |
| D | DP6402 |
| D | HOH510 |
| D | HOH528 |
| D | HOH541 |
| D | LEU58 |
| D | LEU60 |
| D | GLU69 |
| D | LYS72 |
| site_id | AC9 |
| Number of Residues | 16 |
| Details | BINDING SITE FOR RESIDUE DP6 D 402 |
| Chain | Residue |
| D | ALA14 |
| D | LYS17 |
| D | TYR18 |
| D | TRP19 |
| D | LYS21 |
| D | SER107 |
| D | SER139 |
| D | GLY140 |
| D | SER141 |
| D | SER192 |
| D | ARG193 |
| D | MET196 |
| D | ALA283 |
| D | ALA284 |
| D | AGS401 |
| D | HOH528 |
| site_id | BC1 |
| Number of Residues | 3 |
| Details | BINDING SITE FOR RESIDUE FMT D 403 |
| Chain | Residue |
| D | ASN184 |
| D | ASN185 |
| G | GLU64 |
| site_id | BC2 |
| Number of Residues | 17 |
| Details | BINDING SITE FOR RESIDUE AGS E 401 |
| Chain | Residue |
| E | LEU58 |
| E | LEU60 |
| E | GLU69 |
| E | LYS72 |
| E | SER94 |
| E | ASN96 |
| E | ALA101 |
| E | GLY103 |
| E | LEU104 |
| E | ALA105 |
| E | SER106 |
| E | SER107 |
| E | ALA110 |
| E | SER141 |
| E | LYS188 |
| E | SER192 |
| E | DP6402 |
| site_id | BC3 |
| Number of Residues | 14 |
| Details | BINDING SITE FOR RESIDUE DP6 E 402 |
| Chain | Residue |
| E | ALA14 |
| E | LYS17 |
| E | TYR18 |
| E | LYS21 |
| E | SER107 |
| E | SER139 |
| E | GLY140 |
| E | SER141 |
| E | ARG144 |
| E | SER192 |
| E | ARG193 |
| E | MET196 |
| E | ALA283 |
| E | AGS401 |
| site_id | BC4 |
| Number of Residues | 6 |
| Details | BINDING SITE FOR RESIDUE GOL E 403 |
| Chain | Residue |
| E | ASN184 |
| E | GLN186 |
| E | SER187 |
| E | LYS188 |
| E | LYS189 |
| E | PRO286 |
| site_id | BC5 |
| Number of Residues | 3 |
| Details | BINDING SITE FOR RESIDUE FMT E 404 |
| Chain | Residue |
| E | LYS155 |
| E | VAL213 |
| E | ASP214 |
| site_id | BC6 |
| Number of Residues | 19 |
| Details | BINDING SITE FOR RESIDUE AGS F 401 |
| Chain | Residue |
| F | THR43 |
| F | LEU58 |
| F | LEU60 |
| F | GLU69 |
| F | SER94 |
| F | ASN96 |
| F | ALA101 |
| F | GLY103 |
| F | LEU104 |
| F | ALA105 |
| F | SER106 |
| F | SER107 |
| F | ALA110 |
| F | SER141 |
| F | LYS188 |
| F | SER192 |
| F | DP6402 |
| F | HOH525 |
| F | HOH526 |
| site_id | BC7 |
| Number of Residues | 15 |
| Details | BINDING SITE FOR RESIDUE DP6 F 402 |
| Chain | Residue |
| F | ALA14 |
| F | LYS17 |
| F | TYR18 |
| F | TRP19 |
| F | LYS21 |
| F | SER107 |
| F | SER139 |
| F | GLY140 |
| F | SER141 |
| F | ARG144 |
| F | SER192 |
| F | ARG193 |
| F | MET196 |
| F | ALA283 |
| F | AGS401 |
| site_id | BC8 |
| Number of Residues | 23 |
| Details | BINDING SITE FOR RESIDUE AGS G 401 |
| Chain | Residue |
| G | THR43 |
| G | LEU58 |
| G | LEU60 |
| G | GLU69 |
| G | LYS72 |
| G | SER94 |
| G | ASN96 |
| G | ALA101 |
| G | GLY103 |
| G | LEU104 |
| G | ALA105 |
| G | SER106 |
| G | SER107 |
| G | ALA108 |
| G | ALA110 |
| G | SER141 |
| G | LYS188 |
| G | SER191 |
| G | SER192 |
| G | DP6402 |
| G | HOH512 |
| G | HOH518 |
| G | HOH537 |
| site_id | BC9 |
| Number of Residues | 14 |
| Details | BINDING SITE FOR RESIDUE DP6 G 402 |
| Chain | Residue |
| G | ASN12 |
| G | ALA14 |
| G | TYR18 |
| G | LYS21 |
| G | SER107 |
| G | SER139 |
| G | GLY140 |
| G | SER141 |
| G | ARG144 |
| G | SER192 |
| G | ARG193 |
| G | MET196 |
| G | AGS401 |
| G | HOH512 |
| site_id | CC1 |
| Number of Residues | 19 |
| Details | BINDING SITE FOR RESIDUE AGS H 401 |
| Chain | Residue |
| H | THR43 |
| H | LEU58 |
| H | GLU69 |
| H | LYS72 |
| H | SER94 |
| H | ASN96 |
| H | ALA101 |
| H | GLY103 |
| H | LEU104 |
| H | ALA105 |
| H | SER106 |
| H | SER107 |
| H | ALA110 |
| H | SER141 |
| H | LYS188 |
| H | SER192 |
| H | DP6402 |
| H | HOH512 |
| H | HOH517 |
| site_id | CC2 |
| Number of Residues | 15 |
| Details | BINDING SITE FOR RESIDUE DP6 H 402 |
| Chain | Residue |
| H | ALA14 |
| H | LYS17 |
| H | TYR18 |
| H | TRP19 |
| H | LYS21 |
| H | ILE27 |
| H | SER107 |
| H | SER139 |
| H | GLY140 |
| H | SER141 |
| H | SER192 |
| H | ARG193 |
| H | MET196 |
| H | ALA283 |
| H | AGS401 |
| site_id | CC3 |
| Number of Residues | 3 |
| Details | BINDING SITE FOR RESIDUE FMT H 403 |
| Chain | Residue |
| A | TYR262 |
| H | PRO253 |
| H | PHE254 |
