3DI1
Crystal structure of the Staphylococcus aureus Dihydrodipicolinate synthase-pyruvate complex
Functional Information from GO Data
| Chain | GOid | namespace | contents |
| A | 0005737 | cellular_component | cytoplasm |
| A | 0005829 | cellular_component | cytosol |
| A | 0008840 | molecular_function | 4-hydroxy-tetrahydrodipicolinate synthase activity |
| A | 0009085 | biological_process | lysine biosynthetic process |
| A | 0009089 | biological_process | lysine biosynthetic process via diaminopimelate |
| A | 0016829 | molecular_function | lyase activity |
| A | 0019877 | biological_process | diaminopimelate biosynthetic process |
| A | 0044281 | biological_process | small molecule metabolic process |
| B | 0005737 | cellular_component | cytoplasm |
| B | 0005829 | cellular_component | cytosol |
| B | 0008840 | molecular_function | 4-hydroxy-tetrahydrodipicolinate synthase activity |
| B | 0009085 | biological_process | lysine biosynthetic process |
| B | 0009089 | biological_process | lysine biosynthetic process via diaminopimelate |
| B | 0016829 | molecular_function | lyase activity |
| B | 0019877 | biological_process | diaminopimelate biosynthetic process |
| B | 0044281 | biological_process | small molecule metabolic process |
Functional Information from PDB Data
| site_id | AC1 |
| Number of Residues | 7 |
| Details | BINDING SITE FOR RESIDUE PYR A 1001 |
| Chain | Residue |
| A | ALA11 |
| A | GLY45 |
| A | THR46 |
| A | THR47 |
| A | MET103 |
| A | TYR135 |
| A | LYS163 |
| site_id | AC2 |
| Number of Residues | 6 |
| Details | BINDING SITE FOR RESIDUE PYR B 1002 |
| Chain | Residue |
| B | THR46 |
| B | THR47 |
| B | TYR135 |
| B | LYS163 |
| B | ALA11 |
| B | GLY45 |
Functional Information from PROSITE/UniProt
| site_id | PS00666 |
| Number of Residues | 31 |
| Details | DHDPS_2 Dihydrodipicolinate synthase signature 2. YNVPsrTnmtIepetveilsqhpy.IvALKDA |
| Chain | Residue | Details |
| A | TYR135-ALA165 |
Functional Information from SwissProt/UniProt
| site_id | SWS_FT_FI1 |
| Number of Residues | 2 |
| Details | ACT_SITE: Proton donor/acceptor => ECO:0000305|PubMed:18671976 |
| Chain | Residue | Details |
| A | TYR135 | |
| B | TYR135 |
| site_id | SWS_FT_FI2 |
| Number of Residues | 2 |
| Details | ACT_SITE: Schiff-base intermediate with substrate => ECO:0000255|HAMAP-Rule:MF_00418, ECO:0000269|PubMed:18671976 |
| Chain | Residue | Details |
| A | LYS163 | |
| B | LYS163 |
| site_id | SWS_FT_FI3 |
| Number of Residues | 2 |
| Details | BINDING: BINDING => ECO:0000255|HAMAP-Rule:MF_00418, ECO:0000269|PubMed:18671976 |
| Chain | Residue | Details |
| A | THR47 | |
| B | THR47 |
| site_id | SWS_FT_FI4 |
| Number of Residues | 2 |
| Details | BINDING: BINDING => ECO:0000255|HAMAP-Rule:MF_00418 |
| Chain | Residue | Details |
| A | ILE206 | |
| B | ILE206 |
| site_id | SWS_FT_FI5 |
| Number of Residues | 4 |
| Details | SITE: Part of a proton relay during catalysis => ECO:0000305 |
| Chain | Residue | Details |
| A | THR46 | |
| A | TYR109 | |
| B | THR46 | |
| B | TYR109 |
Catalytic Information from CSA
| site_id | CSA1 |
| Number of Residues | 3 |
| Details | Annotated By Reference To The Literature 1dhp |
| Chain | Residue | Details |
| A | TYR135 | |
| A | ARG140 | |
| A | LYS163 |
| site_id | CSA2 |
| Number of Residues | 3 |
| Details | Annotated By Reference To The Literature 1dhp |
| Chain | Residue | Details |
| B | TYR135 | |
| B | ARG140 | |
| B | LYS163 |
| site_id | CSA3 |
| Number of Residues | 3 |
| Details | Annotated By Reference To The Literature 1dhp |
| Chain | Residue | Details |
| A | THR47 | |
| A | THR46 | |
| A | LYS163 |
| site_id | CSA4 |
| Number of Residues | 3 |
| Details | Annotated By Reference To The Literature 1dhp |
| Chain | Residue | Details |
| B | THR47 | |
| B | THR46 | |
| B | LYS163 |
