3G25
1.9 Angstrom Crystal Structure of Glycerol Kinase (glpK) from Staphylococcus aureus in Complex with Glycerol.
Functional Information from GO Data
| Chain | GOid | namespace | contents |
| A | 0004370 | molecular_function | glycerol kinase activity |
| A | 0005524 | molecular_function | ATP binding |
| A | 0005975 | biological_process | carbohydrate metabolic process |
| A | 0006071 | biological_process | glycerol metabolic process |
| A | 0006072 | biological_process | glycerol-3-phosphate metabolic process |
| A | 0016301 | molecular_function | kinase activity |
| A | 0016773 | molecular_function | phosphotransferase activity, alcohol group as acceptor |
| A | 0019563 | biological_process | glycerol catabolic process |
| B | 0004370 | molecular_function | glycerol kinase activity |
| B | 0005524 | molecular_function | ATP binding |
| B | 0005975 | biological_process | carbohydrate metabolic process |
| B | 0006071 | biological_process | glycerol metabolic process |
| B | 0006072 | biological_process | glycerol-3-phosphate metabolic process |
| B | 0016301 | molecular_function | kinase activity |
| B | 0016773 | molecular_function | phosphotransferase activity, alcohol group as acceptor |
| B | 0019563 | biological_process | glycerol catabolic process |
| C | 0004370 | molecular_function | glycerol kinase activity |
| C | 0005524 | molecular_function | ATP binding |
| C | 0005975 | biological_process | carbohydrate metabolic process |
| C | 0006071 | biological_process | glycerol metabolic process |
| C | 0006072 | biological_process | glycerol-3-phosphate metabolic process |
| C | 0016301 | molecular_function | kinase activity |
| C | 0016773 | molecular_function | phosphotransferase activity, alcohol group as acceptor |
| C | 0019563 | biological_process | glycerol catabolic process |
| D | 0004370 | molecular_function | glycerol kinase activity |
| D | 0005524 | molecular_function | ATP binding |
| D | 0005975 | biological_process | carbohydrate metabolic process |
| D | 0006071 | biological_process | glycerol metabolic process |
| D | 0006072 | biological_process | glycerol-3-phosphate metabolic process |
| D | 0016301 | molecular_function | kinase activity |
| D | 0016773 | molecular_function | phosphotransferase activity, alcohol group as acceptor |
| D | 0019563 | biological_process | glycerol catabolic process |
Functional Information from PDB Data
| site_id | AC1 |
| Number of Residues | 9 |
| Details | BINDING SITE FOR RESIDUE GOL A 499 |
| Chain | Residue |
| A | ARG82 |
| A | GLU83 |
| A | TRP102 |
| A | TYR134 |
| A | ASP244 |
| A | GLN245 |
| A | PHE269 |
| A | NA500 |
| A | PO4502 |
| site_id | AC2 |
| Number of Residues | 5 |
| Details | BINDING SITE FOR RESIDUE NA A 500 |
| Chain | Residue |
| A | THR266 |
| A | GLY267 |
| A | PHE269 |
| A | GOL499 |
| A | PO4502 |
| site_id | AC3 |
| Number of Residues | 3 |
| Details | BINDING SITE FOR RESIDUE NA A 501 |
| Chain | Residue |
| A | GLN22 |
| A | PHE452 |
| A | PO4505 |
| site_id | AC4 |
| Number of Residues | 10 |
| Details | BINDING SITE FOR RESIDUE PO4 A 502 |
| Chain | Residue |
| A | GLY11 |
| A | THR12 |
| A | ASP244 |
| A | GLY265 |
| A | THR266 |
| A | GOL499 |
| A | NA500 |
| A | HOH592 |
| A | HOH599 |
| A | HOH671 |
| site_id | AC5 |
| Number of Residues | 5 |
| Details | BINDING SITE FOR RESIDUE PO4 A 503 |
| Chain | Residue |
| A | TYR331 |
| A | LYS372 |
| A | HOH669 |
| B | ARG320 |
| B | NA501 |
| site_id | AC6 |
| Number of Residues | 8 |
| Details | BINDING SITE FOR RESIDUE PO4 A 504 |
| Chain | Residue |
| A | SER337 |
| A | THR338 |
| A | ARG377 |
| A | GLU381 |
| A | PHE420 |
| A | LEU481 |
| A | HOH579 |
| A | HOH595 |
| site_id | AC7 |
| Number of Residues | 7 |
| Details | BINDING SITE FOR RESIDUE PO4 A 505 |
| Chain | Residue |
| A | GLN22 |
| A | TRP453 |
| A | GLU454 |
| A | SER455 |
| A | ASP458 |
| A | NA501 |
| C | LYS23 |
| site_id | AC8 |
| Number of Residues | 4 |
| Details | BINDING SITE FOR RESIDUE PO4 A 506 |
| Chain | Residue |
| A | LYS171 |
| A | GLY174 |
| A | TYR229 |
| A | HIS230 |
| site_id | AC9 |
| Number of Residues | 9 |
| Details | BINDING SITE FOR RESIDUE GOL B 499 |
| Chain | Residue |
| B | ARG82 |
| B | GLU83 |
| B | TRP102 |
| B | TYR134 |
| B | ASP244 |
| B | GLN245 |
| B | PHE269 |
| B | PO4503 |
| B | HOH663 |
| site_id | BC1 |
| Number of Residues | 3 |
| Details | BINDING SITE FOR RESIDUE NA B 500 |
| Chain | Residue |
| B | THR12 |
| B | THR13 |
| B | PO4503 |
| site_id | BC2 |
| Number of Residues | 1 |
| Details | BINDING SITE FOR RESIDUE NA B 501 |
| Chain | Residue |
| A | PO4503 |
| site_id | BC3 |
| Number of Residues | 3 |
| Details | BINDING SITE FOR RESIDUE NA B 502 |
| Chain | Residue |
| B | LYS171 |
| B | LYS175 |
| B | PO4504 |
| site_id | BC4 |
| Number of Residues | 9 |
| Details | BINDING SITE FOR RESIDUE PO4 B 503 |
| Chain | Residue |
| B | GLY11 |
| B | THR12 |
| B | GLY265 |
| B | THR266 |
| B | GOL499 |
| B | NA500 |
| B | HOH575 |
| B | HOH620 |
| B | HOH663 |
| site_id | BC5 |
| Number of Residues | 6 |
| Details | BINDING SITE FOR RESIDUE PO4 B 504 |
| Chain | Residue |
| B | LYS171 |
| B | GLY174 |
| B | LYS175 |
| B | TYR229 |
| B | HIS230 |
| B | NA502 |
| site_id | BC6 |
| Number of Residues | 8 |
| Details | BINDING SITE FOR RESIDUE PO4 B 505 |
| Chain | Residue |
| B | SER337 |
| B | THR338 |
| B | ARG377 |
| B | GLU381 |
| B | PHE420 |
| B | LEU481 |
| B | HOH671 |
| B | HOH957 |
| site_id | BC7 |
| Number of Residues | 6 |
| Details | BINDING SITE FOR RESIDUE PO4 B 506 |
| Chain | Residue |
| A | ARG320 |
| B | TYR331 |
| B | LYS372 |
| B | HOH632 |
| B | HOH876 |
| B | HOH1115 |
| site_id | BC8 |
| Number of Residues | 9 |
| Details | BINDING SITE FOR RESIDUE GOL C 499 |
| Chain | Residue |
| C | TRP102 |
| C | TYR134 |
| C | ASP244 |
| C | GLN245 |
| C | PHE269 |
| C | PO4500 |
| C | GLN81 |
| C | ARG82 |
| C | GLU83 |
| site_id | BC9 |
| Number of Residues | 7 |
| Details | BINDING SITE FOR RESIDUE PO4 C 500 |
| Chain | Residue |
| C | THR12 |
| C | THR13 |
| C | GLY265 |
| C | THR266 |
| C | GOL499 |
| C | HOH598 |
| C | HOH1083 |
| site_id | CC1 |
| Number of Residues | 9 |
| Details | BINDING SITE FOR RESIDUE GOL D 499 |
| Chain | Residue |
| D | GLN81 |
| D | ARG82 |
| D | GLU83 |
| D | TRP102 |
| D | TYR134 |
| D | ASP244 |
| D | GLN245 |
| D | PHE269 |
| D | PO4502 |
| site_id | CC2 |
| Number of Residues | 5 |
| Details | BINDING SITE FOR RESIDUE NA D 500 |
| Chain | Residue |
| D | THR12 |
| D | THR13 |
| D | SER14 |
| D | ARG16 |
| D | PO4502 |
| site_id | CC3 |
| Number of Residues | 3 |
| Details | BINDING SITE FOR RESIDUE NA D 501 |
| Chain | Residue |
| C | LYS372 |
| D | ARG320 |
| D | PO4504 |
| site_id | CC4 |
| Number of Residues | 7 |
| Details | BINDING SITE FOR RESIDUE PO4 D 502 |
| Chain | Residue |
| D | THR12 |
| D | GLY265 |
| D | THR266 |
| D | GOL499 |
| D | NA500 |
| D | HOH842 |
| D | HOH1108 |
| site_id | CC5 |
| Number of Residues | 4 |
| Details | BINDING SITE FOR RESIDUE PO4 D 503 |
| Chain | Residue |
| C | ARG320 |
| D | TYR331 |
| D | LYS372 |
| D | HOH965 |
| site_id | CC6 |
| Number of Residues | 4 |
| Details | BINDING SITE FOR RESIDUE PO4 D 504 |
| Chain | Residue |
| C | TYR331 |
| C | LYS372 |
| D | ARG320 |
| D | NA501 |
Functional Information from PROSITE/UniProt
| site_id | PS00445 |
| Number of Residues | 21 |
| Details | FGGY_KINASES_2 FGGY family of carbohydrate kinases signature 2. GaIFGLtrgteke.HFIRATLE |
| Chain | Residue | Details |
| A | GLY361-GLU381 |
Functional Information from SwissProt/UniProt
| site_id | SWS_FT_FI1 |
| Number of Residues | 44 |
| Details | BINDING: BINDING => ECO:0000255|HAMAP-Rule:MF_00186 |
| Chain | Residue | Details |
| A | THR12 | |
| A | GLN313 | |
| A | GLY410 | |
| B | THR12 | |
| B | THR13 | |
| B | SER14 | |
| B | ARG82 | |
| B | GLU83 | |
| B | TYR134 | |
| B | ASP244 | |
| B | THR266 | |
| A | THR13 | |
| B | GLY309 | |
| B | GLN313 | |
| B | GLY410 | |
| C | THR12 | |
| C | THR13 | |
| C | SER14 | |
| C | ARG82 | |
| C | GLU83 | |
| C | TYR134 | |
| C | ASP244 | |
| A | SER14 | |
| C | THR266 | |
| C | GLY309 | |
| C | GLN313 | |
| C | GLY410 | |
| D | THR12 | |
| D | THR13 | |
| D | SER14 | |
| D | ARG82 | |
| D | GLU83 | |
| D | TYR134 | |
| A | ARG82 | |
| D | ASP244 | |
| D | THR266 | |
| D | GLY309 | |
| D | GLN313 | |
| D | GLY410 | |
| A | GLU83 | |
| A | TYR134 | |
| A | ASP244 | |
| A | THR266 | |
| A | GLY309 |
| site_id | SWS_FT_FI2 |
| Number of Residues | 8 |
| Details | BINDING: BINDING => ECO:0000255|HAMAP-Rule:MF_00186, ECO:0000269|Ref.3, ECO:0007744|PDB:3GE1 |
| Chain | Residue | Details |
| A | ARG16 | |
| A | ASN414 | |
| B | ARG16 | |
| B | ASN414 | |
| C | ARG16 | |
| C | ASN414 | |
| D | ARG16 | |
| D | ASN414 |
| site_id | SWS_FT_FI3 |
| Number of Residues | 4 |
| Details | BINDING: BINDING => ECO:0000255|HAMAP-Rule:MF_00186, ECO:0000269|Ref.2, ECO:0000269|Ref.3, ECO:0007744|PDB:3G25, ECO:0007744|PDB:3GE1 |
| Chain | Residue | Details |
| A | GLN245 | |
| B | GLN245 | |
| C | GLN245 | |
| D | GLN245 |
| site_id | SWS_FT_FI4 |
| Number of Residues | 4 |
| Details | MOD_RES: Phosphohistidine; by HPr => ECO:0000255|HAMAP-Rule:MF_00186 |
| Chain | Residue | Details |
| A | HIS230 | |
| B | HIS230 | |
| C | HIS230 | |
| D | HIS230 |
