5IJZ
Crystal structure of glutamate dehydrogenase(GDH) from Corynebacterium glutamicum
Functional Information from GO Data
| Chain | GOid | namespace | contents |
| A | 0004353 | molecular_function | glutamate dehydrogenase [NAD(P)+] activity |
| A | 0004354 | molecular_function | glutamate dehydrogenase (NADP+) activity |
| A | 0005737 | cellular_component | cytoplasm |
| A | 0006520 | biological_process | amino acid metabolic process |
| A | 0006537 | biological_process | glutamate biosynthetic process |
| A | 0016491 | molecular_function | oxidoreductase activity |
| A | 0016639 | molecular_function | oxidoreductase activity, acting on the CH-NH2 group of donors, NAD or NADP as acceptor |
| B | 0004353 | molecular_function | glutamate dehydrogenase [NAD(P)+] activity |
| B | 0004354 | molecular_function | glutamate dehydrogenase (NADP+) activity |
| B | 0005737 | cellular_component | cytoplasm |
| B | 0006520 | biological_process | amino acid metabolic process |
| B | 0006537 | biological_process | glutamate biosynthetic process |
| B | 0016491 | molecular_function | oxidoreductase activity |
| B | 0016639 | molecular_function | oxidoreductase activity, acting on the CH-NH2 group of donors, NAD or NADP as acceptor |
| C | 0004353 | molecular_function | glutamate dehydrogenase [NAD(P)+] activity |
| C | 0004354 | molecular_function | glutamate dehydrogenase (NADP+) activity |
| C | 0005737 | cellular_component | cytoplasm |
| C | 0006520 | biological_process | amino acid metabolic process |
| C | 0006537 | biological_process | glutamate biosynthetic process |
| C | 0016491 | molecular_function | oxidoreductase activity |
| C | 0016639 | molecular_function | oxidoreductase activity, acting on the CH-NH2 group of donors, NAD or NADP as acceptor |
| D | 0004353 | molecular_function | glutamate dehydrogenase [NAD(P)+] activity |
| D | 0004354 | molecular_function | glutamate dehydrogenase (NADP+) activity |
| D | 0005737 | cellular_component | cytoplasm |
| D | 0006520 | biological_process | amino acid metabolic process |
| D | 0006537 | biological_process | glutamate biosynthetic process |
| D | 0016491 | molecular_function | oxidoreductase activity |
| D | 0016639 | molecular_function | oxidoreductase activity, acting on the CH-NH2 group of donors, NAD or NADP as acceptor |
| E | 0004353 | molecular_function | glutamate dehydrogenase [NAD(P)+] activity |
| E | 0004354 | molecular_function | glutamate dehydrogenase (NADP+) activity |
| E | 0005737 | cellular_component | cytoplasm |
| E | 0006520 | biological_process | amino acid metabolic process |
| E | 0006537 | biological_process | glutamate biosynthetic process |
| E | 0016491 | molecular_function | oxidoreductase activity |
| E | 0016639 | molecular_function | oxidoreductase activity, acting on the CH-NH2 group of donors, NAD or NADP as acceptor |
| F | 0004353 | molecular_function | glutamate dehydrogenase [NAD(P)+] activity |
| F | 0004354 | molecular_function | glutamate dehydrogenase (NADP+) activity |
| F | 0005737 | cellular_component | cytoplasm |
| F | 0006520 | biological_process | amino acid metabolic process |
| F | 0006537 | biological_process | glutamate biosynthetic process |
| F | 0016491 | molecular_function | oxidoreductase activity |
| F | 0016639 | molecular_function | oxidoreductase activity, acting on the CH-NH2 group of donors, NAD or NADP as acceptor |
| G | 0004353 | molecular_function | glutamate dehydrogenase [NAD(P)+] activity |
| G | 0004354 | molecular_function | glutamate dehydrogenase (NADP+) activity |
| G | 0005737 | cellular_component | cytoplasm |
| G | 0006520 | biological_process | amino acid metabolic process |
| G | 0006537 | biological_process | glutamate biosynthetic process |
| G | 0016491 | molecular_function | oxidoreductase activity |
| G | 0016639 | molecular_function | oxidoreductase activity, acting on the CH-NH2 group of donors, NAD or NADP as acceptor |
| H | 0004353 | molecular_function | glutamate dehydrogenase [NAD(P)+] activity |
| H | 0004354 | molecular_function | glutamate dehydrogenase (NADP+) activity |
| H | 0005737 | cellular_component | cytoplasm |
| H | 0006520 | biological_process | amino acid metabolic process |
| H | 0006537 | biological_process | glutamate biosynthetic process |
| H | 0016491 | molecular_function | oxidoreductase activity |
| H | 0016639 | molecular_function | oxidoreductase activity, acting on the CH-NH2 group of donors, NAD or NADP as acceptor |
| I | 0004353 | molecular_function | glutamate dehydrogenase [NAD(P)+] activity |
| I | 0004354 | molecular_function | glutamate dehydrogenase (NADP+) activity |
| I | 0005737 | cellular_component | cytoplasm |
| I | 0006520 | biological_process | amino acid metabolic process |
| I | 0006537 | biological_process | glutamate biosynthetic process |
| I | 0016491 | molecular_function | oxidoreductase activity |
| I | 0016639 | molecular_function | oxidoreductase activity, acting on the CH-NH2 group of donors, NAD or NADP as acceptor |
| J | 0004353 | molecular_function | glutamate dehydrogenase [NAD(P)+] activity |
| J | 0004354 | molecular_function | glutamate dehydrogenase (NADP+) activity |
| J | 0005737 | cellular_component | cytoplasm |
| J | 0006520 | biological_process | amino acid metabolic process |
| J | 0006537 | biological_process | glutamate biosynthetic process |
| J | 0016491 | molecular_function | oxidoreductase activity |
| J | 0016639 | molecular_function | oxidoreductase activity, acting on the CH-NH2 group of donors, NAD or NADP as acceptor |
| K | 0004353 | molecular_function | glutamate dehydrogenase [NAD(P)+] activity |
| K | 0004354 | molecular_function | glutamate dehydrogenase (NADP+) activity |
| K | 0005737 | cellular_component | cytoplasm |
| K | 0006520 | biological_process | amino acid metabolic process |
| K | 0006537 | biological_process | glutamate biosynthetic process |
| K | 0016491 | molecular_function | oxidoreductase activity |
| K | 0016639 | molecular_function | oxidoreductase activity, acting on the CH-NH2 group of donors, NAD or NADP as acceptor |
| L | 0004353 | molecular_function | glutamate dehydrogenase [NAD(P)+] activity |
| L | 0004354 | molecular_function | glutamate dehydrogenase (NADP+) activity |
| L | 0005737 | cellular_component | cytoplasm |
| L | 0006520 | biological_process | amino acid metabolic process |
| L | 0006537 | biological_process | glutamate biosynthetic process |
| L | 0016491 | molecular_function | oxidoreductase activity |
| L | 0016639 | molecular_function | oxidoreductase activity, acting on the CH-NH2 group of donors, NAD or NADP as acceptor |
Functional Information from PDB Data
| site_id | AC1 |
| Number of Residues | 27 |
| Details | binding site for residue NAP A 501 |
| Chain | Residue |
| A | ARG96 |
| A | ASN243 |
| A | VAL244 |
| A | ASP264 |
| A | SER265 |
| A | ARG290 |
| A | CYS320 |
| A | ALA321 |
| A | THR322 |
| A | GLY345 |
| A | ALA346 |
| A | LYS136 |
| A | ASN347 |
| A | ASN372 |
| A | AKG502 |
| A | HOH604 |
| A | HOH610 |
| A | HOH628 |
| A | HOH645 |
| A | HOH657 |
| A | ASP168 |
| A | ILE169 |
| A | GLY170 |
| A | ARG208 |
| A | THR212 |
| A | SER241 |
| A | GLY242 |
| site_id | AC2 |
| Number of Residues | 13 |
| Details | binding site for residue AKG A 502 |
| Chain | Residue |
| A | LYS92 |
| A | GLY93 |
| A | GLY94 |
| A | GLN113 |
| A | LYS116 |
| A | LYS128 |
| A | ALA166 |
| A | ARG208 |
| A | ASN347 |
| A | VAL376 |
| A | SER379 |
| A | NAP501 |
| A | HOH636 |
| site_id | AC3 |
| Number of Residues | 27 |
| Details | binding site for residue NAP B 501 |
| Chain | Residue |
| B | ARG96 |
| B | HIS98 |
| B | LYS136 |
| B | ASP168 |
| B | ILE169 |
| B | GLY170 |
| B | ARG208 |
| B | THR212 |
| B | SER241 |
| B | GLY242 |
| B | ASN243 |
| B | VAL244 |
| B | ASP264 |
| B | SER265 |
| B | ARG290 |
| B | CYS320 |
| B | ALA321 |
| B | THR322 |
| B | GLY345 |
| B | ALA346 |
| B | ASN347 |
| B | AKG502 |
| B | HOH609 |
| B | HOH617 |
| B | HOH625 |
| B | HOH634 |
| B | HOH681 |
| site_id | AC4 |
| Number of Residues | 13 |
| Details | binding site for residue AKG B 502 |
| Chain | Residue |
| B | LYS92 |
| B | GLY93 |
| B | GLY94 |
| B | GLN113 |
| B | LYS116 |
| B | LYS128 |
| B | ALA166 |
| B | THR196 |
| B | ARG208 |
| B | ASN347 |
| B | VAL376 |
| B | SER379 |
| B | NAP501 |
| site_id | AC5 |
| Number of Residues | 28 |
| Details | binding site for residue NAP C 501 |
| Chain | Residue |
| C | ASN347 |
| C | ASN372 |
| C | AKG502 |
| C | HOH606 |
| C | HOH633 |
| C | HOH643 |
| C | HOH656 |
| C | HOH668 |
| C | HOH672 |
| C | ARG96 |
| C | LYS136 |
| C | ASP168 |
| C | ILE169 |
| C | GLY170 |
| C | ARG208 |
| C | THR212 |
| C | SER241 |
| C | GLY242 |
| C | ASN243 |
| C | VAL244 |
| C | ASP264 |
| C | SER265 |
| C | ARG290 |
| C | CYS320 |
| C | ALA321 |
| C | THR322 |
| C | GLY345 |
| C | ALA346 |
| site_id | AC6 |
| Number of Residues | 14 |
| Details | binding site for residue AKG C 502 |
| Chain | Residue |
| C | LYS92 |
| C | GLY93 |
| C | GLY94 |
| C | GLN113 |
| C | LYS116 |
| C | LYS128 |
| C | ALA166 |
| C | ARG208 |
| C | ASN347 |
| C | GLY375 |
| C | VAL376 |
| C | SER379 |
| C | NAP501 |
| C | HOH637 |
| site_id | AC7 |
| Number of Residues | 26 |
| Details | binding site for residue NAP D 501 |
| Chain | Residue |
| D | ARG96 |
| D | LYS136 |
| D | ASP168 |
| D | ILE169 |
| D | GLY170 |
| D | ARG208 |
| D | THR212 |
| D | SER241 |
| D | GLY242 |
| D | ASN243 |
| D | VAL244 |
| D | ASP264 |
| D | SER265 |
| D | ARG290 |
| D | CYS320 |
| D | ALA321 |
| D | THR322 |
| D | GLY345 |
| D | ALA346 |
| D | ASN347 |
| D | ASN372 |
| D | AKG502 |
| D | HOH635 |
| D | HOH636 |
| D | HOH637 |
| D | HOH643 |
| site_id | AC8 |
| Number of Residues | 13 |
| Details | binding site for residue AKG D 502 |
| Chain | Residue |
| D | LYS92 |
| D | GLY93 |
| D | GLY94 |
| D | GLN113 |
| D | LYS116 |
| D | LYS128 |
| D | ALA166 |
| D | ASP168 |
| D | ARG208 |
| D | ASN347 |
| D | VAL376 |
| D | SER379 |
| D | NAP501 |
| site_id | AC9 |
| Number of Residues | 27 |
| Details | binding site for residue NAP E 501 |
| Chain | Residue |
| E | ARG96 |
| E | HIS98 |
| E | LYS136 |
| E | ASP168 |
| E | ILE169 |
| E | GLY170 |
| E | ARG208 |
| E | THR212 |
| E | SER241 |
| E | GLY242 |
| E | ASN243 |
| E | VAL244 |
| E | ASP264 |
| E | SER265 |
| E | ARG290 |
| E | CYS320 |
| E | ALA321 |
| E | THR322 |
| E | GLY345 |
| E | ALA346 |
| E | ASN347 |
| E | ASN372 |
| E | AKG502 |
| E | HOH621 |
| E | HOH631 |
| E | HOH637 |
| E | HOH653 |
| site_id | AD1 |
| Number of Residues | 12 |
| Details | binding site for residue AKG E 502 |
| Chain | Residue |
| E | LYS92 |
| E | GLY93 |
| E | GLY94 |
| E | GLN113 |
| E | LYS116 |
| E | LYS128 |
| E | ALA166 |
| E | ARG208 |
| E | ASN347 |
| E | VAL376 |
| E | SER379 |
| E | NAP501 |
| site_id | AD2 |
| Number of Residues | 28 |
| Details | binding site for residue NAP F 501 |
| Chain | Residue |
| F | ARG96 |
| F | HIS98 |
| F | LYS136 |
| F | ASP168 |
| F | ILE169 |
| F | GLY170 |
| F | ARG208 |
| F | THR212 |
| F | SER241 |
| F | GLY242 |
| F | ASN243 |
| F | VAL244 |
| F | ASP264 |
| F | SER265 |
| F | ARG290 |
| F | CYS320 |
| F | ALA321 |
| F | THR322 |
| F | GLY345 |
| F | ALA346 |
| F | ASN347 |
| F | AKG502 |
| F | HOH605 |
| F | HOH634 |
| F | HOH641 |
| F | HOH643 |
| F | HOH652 |
| F | HOH688 |
| site_id | AD3 |
| Number of Residues | 13 |
| Details | binding site for residue AKG F 502 |
| Chain | Residue |
| F | LYS92 |
| F | GLY93 |
| F | GLY94 |
| F | GLN113 |
| F | LYS116 |
| F | LYS128 |
| F | ALA166 |
| F | ARG208 |
| F | ASN347 |
| F | VAL376 |
| F | SER379 |
| F | NAP501 |
| F | HOH631 |
| site_id | AD4 |
| Number of Residues | 23 |
| Details | binding site for residue NAP G 501 |
| Chain | Residue |
| G | ARG96 |
| G | LYS136 |
| G | ASP168 |
| G | ILE169 |
| G | GLY170 |
| G | ARG208 |
| G | THR212 |
| G | SER241 |
| G | GLY242 |
| G | ASN243 |
| G | VAL244 |
| G | ASP264 |
| G | SER265 |
| G | ARG290 |
| G | CYS320 |
| G | ALA321 |
| G | THR322 |
| G | GLY345 |
| G | ALA346 |
| G | ASN347 |
| G | AKG502 |
| G | HOH608 |
| G | HOH618 |
| site_id | AD5 |
| Number of Residues | 12 |
| Details | binding site for residue AKG G 502 |
| Chain | Residue |
| G | LYS92 |
| G | GLY93 |
| G | GLY94 |
| G | GLN113 |
| G | LYS116 |
| G | LYS128 |
| G | ALA166 |
| G | ARG208 |
| G | ASN347 |
| G | VAL376 |
| G | SER379 |
| G | NAP501 |
| site_id | AD6 |
| Number of Residues | 25 |
| Details | binding site for residue NAP H 501 |
| Chain | Residue |
| H | ARG96 |
| H | LYS136 |
| H | ASP168 |
| H | ILE169 |
| H | GLY170 |
| H | ARG208 |
| H | THR212 |
| H | SER241 |
| H | GLY242 |
| H | ASN243 |
| H | VAL244 |
| H | ASP264 |
| H | SER265 |
| H | ARG290 |
| H | CYS320 |
| H | ALA321 |
| H | GLY345 |
| H | ALA346 |
| H | ASN347 |
| H | ASN372 |
| H | AKG502 |
| H | HOH644 |
| H | HOH652 |
| H | HOH670 |
| H | HOH688 |
| site_id | AD7 |
| Number of Residues | 13 |
| Details | binding site for residue AKG H 502 |
| Chain | Residue |
| H | LYS92 |
| H | GLY93 |
| H | GLY94 |
| H | GLN113 |
| H | LYS116 |
| H | LYS128 |
| H | ALA166 |
| H | ARG208 |
| H | ASN347 |
| H | VAL376 |
| H | SER379 |
| H | NAP501 |
| H | HOH641 |
| site_id | AD8 |
| Number of Residues | 19 |
| Details | binding site for residue NAP J 501 |
| Chain | Residue |
| J | ARG96 |
| J | LYS116 |
| J | ASP168 |
| J | ILE169 |
| J | ARG208 |
| J | THR212 |
| J | SER241 |
| J | GLY242 |
| J | ASN243 |
| J | VAL244 |
| J | ASP264 |
| J | SER265 |
| J | ARG290 |
| J | ALA321 |
| J | THR322 |
| J | GLU325 |
| J | GLY345 |
| J | ASN347 |
| J | HOH635 |
| site_id | AD9 |
| Number of Residues | 10 |
| Details | binding site for residue AKG J 502 |
| Chain | Residue |
| J | LYS92 |
| J | GLY93 |
| J | GLY94 |
| J | GLN113 |
| J | LYS128 |
| J | ALA166 |
| J | GLY167 |
| J | ASP168 |
| J | ARG208 |
| J | SER379 |
Functional Information from PROSITE/UniProt
| site_id | PS00074 |
| Number of Residues | 14 |
| Details | GLFV_DEHYDROGENASE Glu / Leu / Phe / Val dehydrogenases active site. LpiGGGKgGsdfDP |
| Chain | Residue | Details |
| A | LEU122-PRO135 |
Functional Information from SwissProt/UniProt
| site_id | SWS_FT_FI1 |
| Number of Residues | 12 |
| Details | ACT_SITE: Proton donor => ECO:0000255|PROSITE-ProRule:PRU10011 |
| Chain | Residue | Details |
| A | LYS128 | |
| J | LYS128 | |
| K | LYS128 | |
| L | LYS128 | |
| B | LYS128 | |
| C | LYS128 | |
| D | LYS128 | |
| E | LYS128 | |
| F | LYS128 | |
| G | LYS128 | |
| H | LYS128 | |
| I | LYS128 |
| site_id | SWS_FT_FI2 |
| Number of Residues | 84 |
| Details | BINDING: BINDING => ECO:0000250 |
| Chain | Residue | Details |
| A | LYS92 | |
| B | LYS116 | |
| B | GLY167 | |
| B | THR212 | |
| B | ASN243 | |
| B | SER379 | |
| C | LYS92 | |
| C | GLN113 | |
| C | LYS116 | |
| C | GLY167 | |
| C | THR212 | |
| A | GLN113 | |
| C | ASN243 | |
| C | SER379 | |
| D | LYS92 | |
| D | GLN113 | |
| D | LYS116 | |
| D | GLY167 | |
| D | THR212 | |
| D | ASN243 | |
| D | SER379 | |
| E | LYS92 | |
| A | LYS116 | |
| E | GLN113 | |
| E | LYS116 | |
| E | GLY167 | |
| E | THR212 | |
| E | ASN243 | |
| E | SER379 | |
| F | LYS92 | |
| F | GLN113 | |
| F | LYS116 | |
| F | GLY167 | |
| A | GLY167 | |
| F | THR212 | |
| F | ASN243 | |
| F | SER379 | |
| G | LYS92 | |
| G | GLN113 | |
| G | LYS116 | |
| G | GLY167 | |
| G | THR212 | |
| G | ASN243 | |
| G | SER379 | |
| A | THR212 | |
| H | LYS92 | |
| H | GLN113 | |
| H | LYS116 | |
| H | GLY167 | |
| H | THR212 | |
| H | ASN243 | |
| H | SER379 | |
| I | LYS92 | |
| I | GLN113 | |
| I | LYS116 | |
| A | ASN243 | |
| I | GLY167 | |
| I | THR212 | |
| I | ASN243 | |
| I | SER379 | |
| J | LYS92 | |
| J | GLN113 | |
| J | LYS116 | |
| J | GLY167 | |
| J | THR212 | |
| J | ASN243 | |
| A | SER379 | |
| J | SER379 | |
| K | LYS92 | |
| K | GLN113 | |
| K | LYS116 | |
| K | GLY167 | |
| K | THR212 | |
| K | ASN243 | |
| K | SER379 | |
| L | LYS92 | |
| L | GLN113 | |
| B | LYS92 | |
| L | LYS116 | |
| L | GLY167 | |
| L | THR212 | |
| L | ASN243 | |
| L | SER379 | |
| B | GLN113 |
| site_id | SWS_FT_FI3 |
| Number of Residues | 12 |
| Details | SITE: Important for catalysis => ECO:0000250 |
| Chain | Residue | Details |
| A | ASP168 | |
| J | ASP168 | |
| K | ASP168 | |
| L | ASP168 | |
| B | ASP168 | |
| C | ASP168 | |
| D | ASP168 | |
| E | ASP168 | |
| F | ASP168 | |
| G | ASP168 | |
| H | ASP168 | |
| I | ASP168 |
