6W2L
Crystal structure of human dehydrodolichyl diphosphate synthase (NgBR/DHDDS) in complex with Mg and IPP
Functional Information from GO Data
| Chain | GOid | namespace | contents |
| A | 0004659 | molecular_function | prenyltransferase activity |
| A | 0005515 | molecular_function | protein binding |
| A | 0005783 | cellular_component | endoplasmic reticulum |
| A | 0005789 | cellular_component | endoplasmic reticulum membrane |
| A | 0006486 | biological_process | protein glycosylation |
| A | 0006489 | biological_process | dolichyl diphosphate biosynthetic process |
| A | 0006629 | biological_process | lipid metabolic process |
| A | 0016020 | cellular_component | membrane |
| A | 0016094 | biological_process | polyprenol biosynthetic process |
| A | 0016740 | molecular_function | transferase activity |
| A | 0016765 | molecular_function | transferase activity, transferring alkyl or aryl (other than methyl) groups |
| A | 0019408 | biological_process | dolichol biosynthetic process |
| A | 0045547 | molecular_function | ditrans,polycis-polyprenyl diphosphate synthase [(2E,6E)-farnesyl diphosphate specific] activity |
| A | 0046872 | molecular_function | metal ion binding |
| A | 1904423 | cellular_component | dehydrodolichyl diphosphate synthase complex |
| B | 0016765 | molecular_function | transferase activity, transferring alkyl or aryl (other than methyl) groups |
| B | 0019408 | biological_process | dolichol biosynthetic process |
| B | 1904423 | cellular_component | dehydrodolichyl diphosphate synthase complex |
Functional Information from PDB Data
| site_id | AC1 |
| Number of Residues | 4 |
| Details | binding site for residue MG A 401 |
| Chain | Residue |
| A | ASP34 |
| A | IPE402 |
| A | IPE403 |
| A | HOH506 |
| site_id | AC2 |
| Number of Residues | 13 |
| Details | binding site for residue IPE A 402 |
| Chain | Residue |
| A | ARG38 |
| A | HIS51 |
| A | ALA77 |
| A | ASN82 |
| A | ARG85 |
| A | MG401 |
| A | IPE403 |
| A | HOH506 |
| A | MET33 |
| A | ASP34 |
| A | GLY35 |
| A | ASN36 |
| A | ARG37 |
| site_id | AC3 |
| Number of Residues | 19 |
| Details | binding site for residue IPE A 403 |
| Chain | Residue |
| A | ILE32 |
| A | MET33 |
| A | ASP34 |
| A | TYR76 |
| A | ALA77 |
| A | PHE78 |
| A | ASN82 |
| A | ARG85 |
| A | ARG205 |
| A | ARG211 |
| A | SER213 |
| A | MG401 |
| A | IPE402 |
| A | HOH506 |
| A | HOH514 |
| B | ARG290 |
| B | LEU291 |
| B | GLY292 |
| B | HOH308 |
Functional Information from PROSITE/UniProt
| site_id | PS01066 |
| Number of Residues | 18 |
| Details | UPP_SYNTHASE Undecaprenyl pyrophosphate synthase family signature. DILIRTSGevRlSdFLLW |
| Chain | Residue | Details |
| A | ASP201-TRP218 |
Functional Information from SwissProt/UniProt
| site_id | SWS_FT_FI1 |
| Number of Residues | 1 |
| Details | Binding site: {"evidences":[{"source":"PubMed","id":"32817466","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"33077723","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"35584224","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"6Z1N","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"7PAX","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"7PAY","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"7PB0","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"7PB1","evidenceCode":"ECO:0007744"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI2 |
| Number of Residues | 2 |
| Details | Binding site: {"evidences":[{"source":"PubMed","id":"35584224","evidenceCode":"ECO:0000305"},{"source":"PDB","id":"7PAX","evidenceCode":"ECO:0007744"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI3 |
| Number of Residues | 5 |
| Details | Binding site: {"evidences":[{"source":"PubMed","id":"32817466","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"35584224","evidenceCode":"ECO:0000305"},{"source":"PDB","id":"7PAX","evidenceCode":"ECO:0007744"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI4 |
| Number of Residues | 18 |
| Details | Transmembrane: {"description":"Helical; Name=3","evidences":[{"source":"PubMed","id":"21572394","evidenceCode":"ECO:0000303"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI5 |
| Number of Residues | 2 |
| Details | Motif: {"description":"RXG motif; crucial for prenyltransferase activity","evidences":[{"source":"PubMed","id":"32817466","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"28842490","evidenceCode":"ECO:0000305"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI6 |
| Number of Residues | 2 |
| Details | Binding site: {"evidences":[{"source":"PubMed","id":"32817466","evidenceCode":"ECO:0000269"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI7 |
| Number of Residues | 2 |
| Details | Glycosylation: {"description":"N-linked (GlcNAc...) asparagine","evidences":[{"source":"PubMed","id":"21572394","evidenceCode":"ECO:0000269"}]} |
| Chain | Residue | Details |
