3VC2
Crystal structure of geranyl diphosphate C-methyltransferase from Streptomyces coelicolor A3(2) in complex with Mg2+, geranyl diphosphate, and S-adenosyl-L-homocysteine
Functional Information from GO Data
| Chain | GOid | namespace | contents |
| A | 0000287 | molecular_function | magnesium ion binding |
| A | 0008168 | molecular_function | methyltransferase activity |
| A | 0008169 | molecular_function | C-methyltransferase activity |
| A | 0008757 | molecular_function | S-adenosylmethionine-dependent methyltransferase activity |
| A | 0032259 | biological_process | methylation |
| A | 0042214 | biological_process | terpene metabolic process |
| A | 1904047 | molecular_function | S-adenosyl-L-methionine binding |
| B | 0000287 | molecular_function | magnesium ion binding |
| B | 0008168 | molecular_function | methyltransferase activity |
| B | 0008169 | molecular_function | C-methyltransferase activity |
| B | 0008757 | molecular_function | S-adenosylmethionine-dependent methyltransferase activity |
| B | 0032259 | biological_process | methylation |
| B | 0042214 | biological_process | terpene metabolic process |
| B | 1904047 | molecular_function | S-adenosyl-L-methionine binding |
| C | 0000287 | molecular_function | magnesium ion binding |
| C | 0008168 | molecular_function | methyltransferase activity |
| C | 0008169 | molecular_function | C-methyltransferase activity |
| C | 0008757 | molecular_function | S-adenosylmethionine-dependent methyltransferase activity |
| C | 0032259 | biological_process | methylation |
| C | 0042214 | biological_process | terpene metabolic process |
| C | 1904047 | molecular_function | S-adenosyl-L-methionine binding |
| D | 0000287 | molecular_function | magnesium ion binding |
| D | 0008168 | molecular_function | methyltransferase activity |
| D | 0008169 | molecular_function | C-methyltransferase activity |
| D | 0008757 | molecular_function | S-adenosylmethionine-dependent methyltransferase activity |
| D | 0032259 | biological_process | methylation |
| D | 0042214 | biological_process | terpene metabolic process |
| D | 1904047 | molecular_function | S-adenosyl-L-methionine binding |
| E | 0000287 | molecular_function | magnesium ion binding |
| E | 0008168 | molecular_function | methyltransferase activity |
| E | 0008169 | molecular_function | C-methyltransferase activity |
| E | 0008757 | molecular_function | S-adenosylmethionine-dependent methyltransferase activity |
| E | 0032259 | biological_process | methylation |
| E | 0042214 | biological_process | terpene metabolic process |
| E | 1904047 | molecular_function | S-adenosyl-L-methionine binding |
| F | 0000287 | molecular_function | magnesium ion binding |
| F | 0008168 | molecular_function | methyltransferase activity |
| F | 0008169 | molecular_function | C-methyltransferase activity |
| F | 0008757 | molecular_function | S-adenosylmethionine-dependent methyltransferase activity |
| F | 0032259 | biological_process | methylation |
| F | 0042214 | biological_process | terpene metabolic process |
| F | 1904047 | molecular_function | S-adenosyl-L-methionine binding |
| G | 0000287 | molecular_function | magnesium ion binding |
| G | 0008168 | molecular_function | methyltransferase activity |
| G | 0008169 | molecular_function | C-methyltransferase activity |
| G | 0008757 | molecular_function | S-adenosylmethionine-dependent methyltransferase activity |
| G | 0032259 | biological_process | methylation |
| G | 0042214 | biological_process | terpene metabolic process |
| G | 1904047 | molecular_function | S-adenosyl-L-methionine binding |
| H | 0000287 | molecular_function | magnesium ion binding |
| H | 0008168 | molecular_function | methyltransferase activity |
| H | 0008169 | molecular_function | C-methyltransferase activity |
| H | 0008757 | molecular_function | S-adenosylmethionine-dependent methyltransferase activity |
| H | 0032259 | biological_process | methylation |
| H | 0042214 | biological_process | terpene metabolic process |
| H | 1904047 | molecular_function | S-adenosyl-L-methionine binding |
| I | 0000287 | molecular_function | magnesium ion binding |
| I | 0008168 | molecular_function | methyltransferase activity |
| I | 0008169 | molecular_function | C-methyltransferase activity |
| I | 0008757 | molecular_function | S-adenosylmethionine-dependent methyltransferase activity |
| I | 0032259 | biological_process | methylation |
| I | 0042214 | biological_process | terpene metabolic process |
| I | 1904047 | molecular_function | S-adenosyl-L-methionine binding |
| J | 0000287 | molecular_function | magnesium ion binding |
| J | 0008168 | molecular_function | methyltransferase activity |
| J | 0008169 | molecular_function | C-methyltransferase activity |
| J | 0008757 | molecular_function | S-adenosylmethionine-dependent methyltransferase activity |
| J | 0032259 | biological_process | methylation |
| J | 0042214 | biological_process | terpene metabolic process |
| J | 1904047 | molecular_function | S-adenosyl-L-methionine binding |
| K | 0000287 | molecular_function | magnesium ion binding |
| K | 0008168 | molecular_function | methyltransferase activity |
| K | 0008169 | molecular_function | C-methyltransferase activity |
| K | 0008757 | molecular_function | S-adenosylmethionine-dependent methyltransferase activity |
| K | 0032259 | biological_process | methylation |
| K | 0042214 | biological_process | terpene metabolic process |
| K | 1904047 | molecular_function | S-adenosyl-L-methionine binding |
| L | 0000287 | molecular_function | magnesium ion binding |
| L | 0008168 | molecular_function | methyltransferase activity |
| L | 0008169 | molecular_function | C-methyltransferase activity |
| L | 0008757 | molecular_function | S-adenosylmethionine-dependent methyltransferase activity |
| L | 0032259 | biological_process | methylation |
| L | 0042214 | biological_process | terpene metabolic process |
| L | 1904047 | molecular_function | S-adenosyl-L-methionine binding |
Functional Information from PDB Data
| site_id | AC1 |
| Number of Residues | 6 |
| Details | BINDING SITE FOR RESIDUE MG A 301 |
| Chain | Residue |
| A | ASN37 |
| A | GLU81 |
| A | GPP303 |
| A | HOH401 |
| A | HOH402 |
| A | HOH403 |
| site_id | AC2 |
| Number of Residues | 22 |
| Details | BINDING SITE FOR RESIDUE SAH A 302 |
| Chain | Residue |
| A | HIS50 |
| A | GLY105 |
| A | CYS106 |
| A | GLY107 |
| A | THR127 |
| A | LEU128 |
| A | GLN132 |
| A | CYS154 |
| A | ASN155 |
| A | MET156 |
| A | ASN172 |
| A | SER174 |
| A | TYR177 |
| A | VAL178 |
| A | HOH406 |
| A | HOH416 |
| A | HOH417 |
| A | HOH427 |
| A | HOH444 |
| A | GLN22 |
| A | TRP29 |
| A | HIS49 |
| site_id | AC3 |
| Number of Residues | 13 |
| Details | BINDING SITE FOR RESIDUE GPP A 303 |
| Chain | Residue |
| A | TRP29 |
| A | ARG34 |
| A | VAL36 |
| A | ASN37 |
| A | HIS49 |
| A | TYR51 |
| A | GLU173 |
| A | TYR177 |
| A | GLY202 |
| A | PHE222 |
| A | ARG260 |
| A | MG301 |
| A | HOH500 |
| site_id | AC4 |
| Number of Residues | 23 |
| Details | BINDING SITE FOR RESIDUE SAH B 301 |
| Chain | Residue |
| B | GLN22 |
| B | TRP29 |
| B | HIS49 |
| B | HIS50 |
| B | GLY105 |
| B | CYS106 |
| B | GLY107 |
| B | THR127 |
| B | LEU128 |
| B | GLN132 |
| B | CYS154 |
| B | ASN155 |
| B | MET156 |
| B | ASN172 |
| B | GLU173 |
| B | SER174 |
| B | TYR177 |
| B | VAL178 |
| B | HOH405 |
| B | HOH422 |
| B | HOH424 |
| B | HOH431 |
| B | HOH466 |
| site_id | AC5 |
| Number of Residues | 23 |
| Details | BINDING SITE FOR RESIDUE SAH C 301 |
| Chain | Residue |
| C | GLN22 |
| C | TRP29 |
| C | HIS49 |
| C | HIS50 |
| C | GLY105 |
| C | CYS106 |
| C | GLY107 |
| C | THR127 |
| C | LEU128 |
| C | GLN132 |
| C | CYS154 |
| C | ASN155 |
| C | MET156 |
| C | ASN172 |
| C | GLU173 |
| C | SER174 |
| C | TYR177 |
| C | VAL178 |
| C | HOH413 |
| C | HOH415 |
| C | HOH416 |
| C | HOH417 |
| C | HOH449 |
| site_id | AC6 |
| Number of Residues | 6 |
| Details | BINDING SITE FOR RESIDUE MG D 301 |
| Chain | Residue |
| D | ASN37 |
| D | GLU81 |
| D | GPP303 |
| D | HOH401 |
| D | HOH402 |
| D | HOH403 |
| site_id | AC7 |
| Number of Residues | 25 |
| Details | BINDING SITE FOR RESIDUE SAH D 302 |
| Chain | Residue |
| D | CYS106 |
| D | GLY107 |
| D | THR127 |
| D | LEU128 |
| D | GLN132 |
| D | CYS154 |
| D | ASN155 |
| D | MET156 |
| D | ASN172 |
| D | GLU173 |
| D | SER174 |
| D | TYR177 |
| D | VAL178 |
| D | GPP303 |
| D | HOH406 |
| D | HOH413 |
| D | HOH416 |
| D | HOH429 |
| D | HOH448 |
| D | GLN22 |
| D | TRP29 |
| D | HIS48 |
| D | HIS49 |
| D | HIS50 |
| D | GLY105 |
| site_id | AC8 |
| Number of Residues | 16 |
| Details | BINDING SITE FOR RESIDUE GPP D 303 |
| Chain | Residue |
| D | TRP29 |
| D | ARG34 |
| D | VAL36 |
| D | ASN37 |
| D | HIS49 |
| D | TYR51 |
| D | GLU173 |
| D | TYR177 |
| D | GLY202 |
| D | PHE222 |
| D | ARG260 |
| D | MG301 |
| D | SAH302 |
| D | HOH402 |
| D | HOH403 |
| D | HOH439 |
| site_id | AC9 |
| Number of Residues | 25 |
| Details | BINDING SITE FOR RESIDUE SAH E 301 |
| Chain | Residue |
| E | GLN22 |
| E | TRP29 |
| E | HIS48 |
| E | HIS49 |
| E | HIS50 |
| E | GLY105 |
| E | CYS106 |
| E | GLY107 |
| E | VAL126 |
| E | THR127 |
| E | LEU128 |
| E | GLN132 |
| E | CYS154 |
| E | ASN155 |
| E | MET156 |
| E | ASN172 |
| E | GLU173 |
| E | SER174 |
| E | TYR177 |
| E | VAL178 |
| E | HOH402 |
| E | HOH408 |
| E | HOH429 |
| E | HOH434 |
| E | HOH458 |
| site_id | BC1 |
| Number of Residues | 7 |
| Details | BINDING SITE FOR RESIDUE SO4 E 302 |
| Chain | Residue |
| E | TYR28 |
| E | ARG34 |
| E | HIS221 |
| E | HOH496 |
| E | HOH519 |
| H | ARG138 |
| H | HOH489 |
| site_id | BC2 |
| Number of Residues | 23 |
| Details | BINDING SITE FOR RESIDUE SAH F 301 |
| Chain | Residue |
| F | GLN22 |
| F | TRP29 |
| F | HIS49 |
| F | HIS50 |
| F | GLY105 |
| F | CYS106 |
| F | GLY107 |
| F | VAL126 |
| F | THR127 |
| F | LEU128 |
| F | GLN132 |
| F | CYS154 |
| F | ASN155 |
| F | MET156 |
| F | ASN172 |
| F | GLU173 |
| F | SER174 |
| F | TYR177 |
| F | VAL178 |
| F | HOH403 |
| F | HOH412 |
| F | HOH422 |
| F | HOH444 |
| site_id | BC3 |
| Number of Residues | 22 |
| Details | BINDING SITE FOR RESIDUE SAH G 301 |
| Chain | Residue |
| G | GLN22 |
| G | TRP29 |
| G | HIS48 |
| G | HIS49 |
| G | HIS50 |
| G | GLY105 |
| G | GLY107 |
| G | THR127 |
| G | LEU128 |
| G | GLN132 |
| G | CYS154 |
| G | ASN155 |
| G | MET156 |
| G | ASN172 |
| G | SER174 |
| G | TYR177 |
| G | VAL178 |
| G | HOH402 |
| G | HOH409 |
| G | HOH417 |
| G | HOH422 |
| G | HOH455 |
| site_id | BC4 |
| Number of Residues | 5 |
| Details | BINDING SITE FOR RESIDUE MG H 301 |
| Chain | Residue |
| H | ASN37 |
| H | GPP303 |
| H | HOH401 |
| H | HOH402 |
| H | HOH403 |
| site_id | BC5 |
| Number of Residues | 23 |
| Details | BINDING SITE FOR RESIDUE SAH H 302 |
| Chain | Residue |
| H | GLN22 |
| H | TRP29 |
| H | HIS48 |
| H | HIS49 |
| H | HIS50 |
| H | GLY105 |
| H | GLY107 |
| H | THR127 |
| H | LEU128 |
| H | GLN132 |
| H | CYS154 |
| H | ASN155 |
| H | MET156 |
| H | ASN172 |
| H | GLU173 |
| H | SER174 |
| H | TYR177 |
| H | VAL178 |
| H | HOH407 |
| H | HOH408 |
| H | HOH411 |
| H | HOH421 |
| H | HOH423 |
| site_id | BC6 |
| Number of Residues | 16 |
| Details | BINDING SITE FOR RESIDUE GPP H 303 |
| Chain | Residue |
| H | TRP29 |
| H | ARG34 |
| H | VAL36 |
| H | ASN37 |
| H | HIS49 |
| H | HIS50 |
| H | TYR51 |
| H | GLU173 |
| H | TYR177 |
| H | GLY202 |
| H | PHE222 |
| H | ARG260 |
| H | PHE282 |
| H | MG301 |
| H | HOH402 |
| H | HOH456 |
| site_id | BC7 |
| Number of Residues | 23 |
| Details | BINDING SITE FOR RESIDUE SAH I 301 |
| Chain | Residue |
| I | GLN22 |
| I | TRP29 |
| I | HIS49 |
| I | HIS50 |
| I | GLY105 |
| I | CYS106 |
| I | GLY107 |
| I | THR127 |
| I | LEU128 |
| I | GLN132 |
| I | CYS154 |
| I | ASN155 |
| I | MET156 |
| I | ASN172 |
| I | GLU173 |
| I | SER174 |
| I | TYR177 |
| I | VAL178 |
| I | HOH401 |
| I | HOH416 |
| I | HOH428 |
| I | HOH445 |
| I | HOH448 |
| site_id | BC8 |
| Number of Residues | 5 |
| Details | BINDING SITE FOR RESIDUE MG J 301 |
| Chain | Residue |
| J | ASN37 |
| J | GPP303 |
| J | HOH401 |
| J | HOH402 |
| J | HOH403 |
| site_id | BC9 |
| Number of Residues | 23 |
| Details | BINDING SITE FOR RESIDUE SAH J 302 |
| Chain | Residue |
| J | GLN22 |
| J | TRP29 |
| J | HIS49 |
| J | HIS50 |
| J | GLY105 |
| J | GLY107 |
| J | THR127 |
| J | LEU128 |
| J | GLN132 |
| J | CYS154 |
| J | ASN155 |
| J | MET156 |
| J | ASN172 |
| J | GLU173 |
| J | SER174 |
| J | TYR177 |
| J | VAL178 |
| J | GPP303 |
| J | HOH408 |
| J | HOH422 |
| J | HOH429 |
| J | HOH431 |
| J | HOH441 |
| site_id | CC1 |
| Number of Residues | 14 |
| Details | BINDING SITE FOR RESIDUE GPP J 303 |
| Chain | Residue |
| J | TRP29 |
| J | ARG34 |
| J | VAL36 |
| J | ASN37 |
| J | HIS49 |
| J | TYR51 |
| J | GLU173 |
| J | TYR177 |
| J | PHE222 |
| J | ARG260 |
| J | MG301 |
| J | SAH302 |
| J | HOH403 |
| J | HOH488 |
| site_id | CC2 |
| Number of Residues | 21 |
| Details | BINDING SITE FOR RESIDUE SAH K 301 |
| Chain | Residue |
| K | GLN22 |
| K | TRP29 |
| K | HIS48 |
| K | HIS49 |
| K | HIS50 |
| K | GLY105 |
| K | GLY107 |
| K | THR127 |
| K | LEU128 |
| K | GLN132 |
| K | CYS154 |
| K | ASN155 |
| K | MET156 |
| K | ASN172 |
| K | SER174 |
| K | TYR177 |
| K | VAL178 |
| K | HOH402 |
| K | HOH408 |
| K | HOH418 |
| K | HOH455 |
| site_id | CC3 |
| Number of Residues | 23 |
| Details | BINDING SITE FOR RESIDUE SAH L 301 |
| Chain | Residue |
| L | GLN22 |
| L | TRP29 |
| L | HIS49 |
| L | HIS50 |
| L | GLY105 |
| L | CYS106 |
| L | GLY107 |
| L | THR127 |
| L | LEU128 |
| L | GLN132 |
| L | CYS154 |
| L | ASN155 |
| L | MET156 |
| L | ASN172 |
| L | GLU173 |
| L | SER174 |
| L | TYR177 |
| L | VAL178 |
| L | HOH402 |
| L | HOH410 |
| L | HOH430 |
| L | HOH432 |
| L | HOH440 |
