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 | 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 | 0016301 | molecular_function | kinase activity |
A | 0016310 | biological_process | phosphorylation |
A | 0016829 | molecular_function | lyase activity |
A | 0016831 | molecular_function | carboxy-lyase activity |
A | 0019287 | biological_process | isopentenyl diphosphate biosynthetic process, mevalonate pathway |
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 | 0016301 | molecular_function | kinase activity |
B | 0016310 | biological_process | phosphorylation |
B | 0016829 | molecular_function | lyase activity |
B | 0016831 | molecular_function | carboxy-lyase activity |
B | 0019287 | biological_process | isopentenyl diphosphate biosynthetic process, mevalonate pathway |
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 | 0016301 | molecular_function | kinase activity |
C | 0016310 | biological_process | phosphorylation |
C | 0016829 | molecular_function | lyase activity |
C | 0016831 | molecular_function | carboxy-lyase activity |
C | 0019287 | biological_process | isopentenyl diphosphate biosynthetic process, mevalonate pathway |
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 | 0016301 | molecular_function | kinase activity |
D | 0016310 | biological_process | phosphorylation |
D | 0016829 | molecular_function | lyase activity |
D | 0016831 | molecular_function | carboxy-lyase activity |
D | 0019287 | biological_process | isopentenyl diphosphate biosynthetic process, mevalonate pathway |
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 | 0016301 | molecular_function | kinase activity |
E | 0016310 | biological_process | phosphorylation |
E | 0016829 | molecular_function | lyase activity |
E | 0016831 | molecular_function | carboxy-lyase activity |
E | 0019287 | biological_process | isopentenyl diphosphate biosynthetic process, mevalonate pathway |
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 | 0016301 | molecular_function | kinase activity |
F | 0016310 | biological_process | phosphorylation |
F | 0016829 | molecular_function | lyase activity |
F | 0016831 | molecular_function | carboxy-lyase activity |
F | 0019287 | biological_process | isopentenyl diphosphate biosynthetic process, mevalonate pathway |
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 | 0016301 | molecular_function | kinase activity |
G | 0016310 | biological_process | phosphorylation |
G | 0016829 | molecular_function | lyase activity |
G | 0016831 | molecular_function | carboxy-lyase activity |
G | 0019287 | biological_process | isopentenyl diphosphate biosynthetic process, mevalonate pathway |
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 | 0016301 | molecular_function | kinase activity |
H | 0016310 | biological_process | phosphorylation |
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 |