5FB3
Structure of glycerophosphate dehydrogenase in complex with NADPH
Functional Information from GO Data
Chain | GOid | namespace | contents |
A | 0005737 | cellular_component | cytoplasm |
A | 0005829 | cellular_component | cytosol |
A | 0006650 | biological_process | glycerophospholipid metabolic process |
A | 0008654 | biological_process | phospholipid biosynthetic process |
A | 0016491 | molecular_function | oxidoreductase activity |
A | 0016614 | molecular_function | oxidoreductase activity, acting on CH-OH group of donors |
A | 0046872 | molecular_function | metal ion binding |
A | 0050492 | molecular_function | glycerol-1-phosphate dehydrogenase [NAD(P)+] activity |
A | 0106357 | molecular_function | glycerol-1-phosphate dehydrogenase [NAD+] activity |
A | 0106358 | molecular_function | glycerol-1-phosphate dehydrogenase [NADP+] activity |
B | 0005737 | cellular_component | cytoplasm |
B | 0005829 | cellular_component | cytosol |
B | 0006650 | biological_process | glycerophospholipid metabolic process |
B | 0008654 | biological_process | phospholipid biosynthetic process |
B | 0016491 | molecular_function | oxidoreductase activity |
B | 0016614 | molecular_function | oxidoreductase activity, acting on CH-OH group of donors |
B | 0046872 | molecular_function | metal ion binding |
B | 0050492 | molecular_function | glycerol-1-phosphate dehydrogenase [NAD(P)+] activity |
B | 0106357 | molecular_function | glycerol-1-phosphate dehydrogenase [NAD+] activity |
B | 0106358 | molecular_function | glycerol-1-phosphate dehydrogenase [NADP+] activity |
C | 0005737 | cellular_component | cytoplasm |
C | 0005829 | cellular_component | cytosol |
C | 0006650 | biological_process | glycerophospholipid metabolic process |
C | 0008654 | biological_process | phospholipid biosynthetic process |
C | 0016491 | molecular_function | oxidoreductase activity |
C | 0016614 | molecular_function | oxidoreductase activity, acting on CH-OH group of donors |
C | 0046872 | molecular_function | metal ion binding |
C | 0050492 | molecular_function | glycerol-1-phosphate dehydrogenase [NAD(P)+] activity |
C | 0106357 | molecular_function | glycerol-1-phosphate dehydrogenase [NAD+] activity |
C | 0106358 | molecular_function | glycerol-1-phosphate dehydrogenase [NADP+] activity |
D | 0005737 | cellular_component | cytoplasm |
D | 0005829 | cellular_component | cytosol |
D | 0006650 | biological_process | glycerophospholipid metabolic process |
D | 0008654 | biological_process | phospholipid biosynthetic process |
D | 0016491 | molecular_function | oxidoreductase activity |
D | 0016614 | molecular_function | oxidoreductase activity, acting on CH-OH group of donors |
D | 0046872 | molecular_function | metal ion binding |
D | 0050492 | molecular_function | glycerol-1-phosphate dehydrogenase [NAD(P)+] activity |
D | 0106357 | molecular_function | glycerol-1-phosphate dehydrogenase [NAD+] activity |
D | 0106358 | molecular_function | glycerol-1-phosphate dehydrogenase [NADP+] activity |
E | 0005737 | cellular_component | cytoplasm |
E | 0005829 | cellular_component | cytosol |
E | 0006650 | biological_process | glycerophospholipid metabolic process |
E | 0008654 | biological_process | phospholipid biosynthetic process |
E | 0016491 | molecular_function | oxidoreductase activity |
E | 0016614 | molecular_function | oxidoreductase activity, acting on CH-OH group of donors |
E | 0046872 | molecular_function | metal ion binding |
E | 0050492 | molecular_function | glycerol-1-phosphate dehydrogenase [NAD(P)+] activity |
E | 0106357 | molecular_function | glycerol-1-phosphate dehydrogenase [NAD+] activity |
E | 0106358 | molecular_function | glycerol-1-phosphate dehydrogenase [NADP+] activity |
F | 0005737 | cellular_component | cytoplasm |
F | 0005829 | cellular_component | cytosol |
F | 0006650 | biological_process | glycerophospholipid metabolic process |
F | 0008654 | biological_process | phospholipid biosynthetic process |
F | 0016491 | molecular_function | oxidoreductase activity |
F | 0016614 | molecular_function | oxidoreductase activity, acting on CH-OH group of donors |
F | 0046872 | molecular_function | metal ion binding |
F | 0050492 | molecular_function | glycerol-1-phosphate dehydrogenase [NAD(P)+] activity |
F | 0106357 | molecular_function | glycerol-1-phosphate dehydrogenase [NAD+] activity |
F | 0106358 | molecular_function | glycerol-1-phosphate dehydrogenase [NADP+] activity |
Functional Information from PDB Data
site_id | AC1 |
Number of Residues | 3 |
Details | binding site for residue ZN A 2001 |
Chain | Residue |
A | ASP157 |
A | HIS238 |
A | HIS256 |
site_id | AC2 |
Number of Residues | 5 |
Details | binding site for residue SO4 A 2002 |
Chain | Residue |
A | PHE117 |
A | SER230 |
A | SER234 |
A | HIS242 |
A | ARG312 |
site_id | AC3 |
Number of Residues | 3 |
Details | binding site for residue SO4 A 2003 |
Chain | Residue |
A | GLY127 |
A | LYS128 |
A | TYR92 |
site_id | AC4 |
Number of Residues | 4 |
Details | binding site for residue SO4 A 2004 |
Chain | Residue |
A | ILE60 |
A | VAL65 |
A | GLU66 |
A | LYS69 |
site_id | AC5 |
Number of Residues | 3 |
Details | binding site for residue ZN B 2001 |
Chain | Residue |
B | ASP157 |
B | HIS238 |
B | HIS256 |
site_id | AC6 |
Number of Residues | 3 |
Details | binding site for residue SO4 B 2002 |
Chain | Residue |
B | ARG173 |
B | HOH2104 |
D | TRP275 |
site_id | AC7 |
Number of Residues | 4 |
Details | binding site for residue SO4 B 2003 |
Chain | Residue |
B | PRO70 |
B | GLY71 |
B | PHE72 |
B | LYS96 |
site_id | AC8 |
Number of Residues | 6 |
Details | binding site for residue PPV B 2004 |
Chain | Residue |
B | GLY80 |
B | GLY81 |
B | ARG82 |
B | SER106 |
B | LEU150 |
B | HOH2108 |
site_id | AC9 |
Number of Residues | 4 |
Details | binding site for residue ZN C 2001 |
Chain | Residue |
C | ASP108 |
C | ASP157 |
C | HIS238 |
C | HIS256 |
site_id | AD1 |
Number of Residues | 5 |
Details | binding site for residue SO4 C 2002 |
Chain | Residue |
C | PHE117 |
C | SER230 |
C | SER234 |
C | HIS242 |
C | ARG312 |
site_id | AD2 |
Number of Residues | 5 |
Details | binding site for residue SO4 C 2003 |
Chain | Residue |
C | GLU5 |
C | TYR179 |
C | SER180 |
C | GLU181 |
D | LYS215 |
site_id | AD3 |
Number of Residues | 29 |
Details | binding site for residue NDP D 1001 |
Chain | Residue |
D | GLY38 |
D | LYS39 |
D | SER40 |
D | SER41 |
D | THR42 |
D | GLY80 |
D | GLY81 |
D | ARG82 |
D | PRO83 |
D | ASP85 |
D | THR103 |
D | SER104 |
D | SER106 |
D | HIS107 |
D | ASP108 |
D | TYR114 |
D | VAL115 |
D | SER116 |
D | LEU119 |
D | ILE142 |
D | SER145 |
D | LEU150 |
D | GLU251 |
D | HIS256 |
D | HOH1101 |
D | HOH1111 |
D | HOH1113 |
D | HOH1129 |
F | ARG206 |
site_id | AD4 |
Number of Residues | 4 |
Details | binding site for residue ZN D 1002 |
Chain | Residue |
D | ASP108 |
D | ASP157 |
D | HIS238 |
D | HIS256 |
site_id | AD5 |
Number of Residues | 4 |
Details | binding site for residue SO4 D 1003 |
Chain | Residue |
D | SER290 |
D | ARG292 |
D | GLN293 |
F | ARG149 |
site_id | AD6 |
Number of Residues | 22 |
Details | binding site for residue NDP E 1001 |
Chain | Residue |
E | SER145 |
E | ALA146 |
E | LEU150 |
E | HIS256 |
E | HOH1102 |
E | GLY38 |
E | LYS39 |
E | SER40 |
E | SER41 |
E | THR42 |
E | GLY80 |
E | GLY81 |
E | ARG82 |
E | ASP85 |
E | THR103 |
E | SER104 |
E | SER106 |
E | HIS107 |
E | TYR114 |
E | VAL115 |
E | SER116 |
E | ILE142 |
site_id | AD7 |
Number of Residues | 3 |
Details | binding site for residue ZN E 1002 |
Chain | Residue |
E | ASP157 |
E | HIS238 |
E | HIS256 |
site_id | AD8 |
Number of Residues | 5 |
Details | binding site for residue SO4 E 1003 |
Chain | Residue |
E | GLY228 |
E | SER229 |
E | SER230 |
E | ARG312 |
E | ARG315 |
site_id | AD9 |
Number of Residues | 3 |
Details | binding site for residue SO4 F 401 |
Chain | Residue |
C | ARG166 |
C | GLY272 |
F | ARG166 |
site_id | AE1 |
Number of Residues | 25 |
Details | binding site for residue NDP F 402 |
Chain | Residue |
F | GLY38 |
F | LYS39 |
F | SER40 |
F | SER41 |
F | THR42 |
F | GLY80 |
F | GLY81 |
F | ARG82 |
F | ASP85 |
F | THR103 |
F | SER106 |
F | HIS107 |
F | TYR114 |
F | VAL115 |
F | SER116 |
F | ILE142 |
F | SER145 |
F | ALA146 |
F | LEU150 |
F | GLU251 |
F | HIS256 |
F | HOH506 |
F | HOH518 |
F | HOH519 |
F | HOH534 |
site_id | AE2 |
Number of Residues | 4 |
Details | binding site for residue ZN F 403 |
Chain | Residue |
F | ASP157 |
F | HIS238 |
F | HIS256 |
F | HOH527 |
site_id | AE3 |
Number of Residues | 5 |
Details | binding site for residue SO4 F 404 |
Chain | Residue |
D | LYS202 |
D | ASN203 |
F | SER41 |
F | LYS44 |
F | HOH505 |
site_id | AE4 |
Number of Residues | 5 |
Details | binding site for residue SO4 F 405 |
Chain | Residue |
F | PRO70 |
F | GLY71 |
F | HIS94 |
F | LYS96 |
F | HOH517 |
Functional Information from SwissProt/UniProt
site_id | SWS_FT_FI1 |
Number of Residues | 48 |
Details | BINDING: BINDING => ECO:0000255|HAMAP-Rule:MF_00497 |
Chain | Residue | Details |
B | ASP157 | |
B | HIS238 | |
B | HIS242 | |
B | HIS256 | |
C | GLY81 | |
C | THR103 | |
C | ASP108 | |
C | SER112 | |
C | ASP157 | |
C | HIS238 | |
C | HIS242 | |
C | HIS256 | |
D | GLY81 | |
D | THR103 | |
D | ASP108 | |
D | SER112 | |
D | ASP157 | |
D | HIS238 | |
D | HIS242 | |
D | HIS256 | |
E | GLY81 | |
E | THR103 | |
E | ASP108 | |
E | SER112 | |
E | ASP157 | |
E | HIS238 | |
E | HIS242 | |
E | HIS256 | |
F | GLY81 | |
F | THR103 | |
F | ASP108 | |
F | SER112 | |
F | ASP157 | |
F | HIS238 | |
F | HIS242 | |
F | HIS256 | |
A | GLY81 | |
A | THR103 | |
A | ASP108 | |
A | SER112 | |
A | ASP157 | |
A | HIS238 | |
A | HIS242 | |
A | HIS256 | |
B | GLY81 | |
B | THR103 | |
B | ASP108 | |
B | SER112 |