1ML3
Evidences for a flip-flop catalytic mechanism of Trypanosoma cruzi glyceraldehyde-3-phosphate dehydrogenase, from its crystal structure in complex with reacted irreversible inhibitor 2-(2-phosphono-ethyl)-acrylic acid 4-nitro-phenyl ester
Functional Information from GO Data
Chain | GOid | namespace | contents |
A | 0004365 | molecular_function | glyceraldehyde-3-phosphate dehydrogenase (NAD+) (phosphorylating) activity |
A | 0005829 | cellular_component | cytosol |
A | 0006006 | biological_process | glucose metabolic process |
A | 0006096 | biological_process | glycolytic process |
A | 0016491 | molecular_function | oxidoreductase activity |
A | 0016620 | molecular_function | oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor |
A | 0020015 | cellular_component | glycosome |
A | 0050661 | molecular_function | NADP binding |
A | 0051287 | molecular_function | NAD binding |
B | 0004365 | molecular_function | glyceraldehyde-3-phosphate dehydrogenase (NAD+) (phosphorylating) activity |
B | 0005829 | cellular_component | cytosol |
B | 0006006 | biological_process | glucose metabolic process |
B | 0006096 | biological_process | glycolytic process |
B | 0016491 | molecular_function | oxidoreductase activity |
B | 0016620 | molecular_function | oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor |
B | 0020015 | cellular_component | glycosome |
B | 0050661 | molecular_function | NADP binding |
B | 0051287 | molecular_function | NAD binding |
C | 0004365 | molecular_function | glyceraldehyde-3-phosphate dehydrogenase (NAD+) (phosphorylating) activity |
C | 0005829 | cellular_component | cytosol |
C | 0006006 | biological_process | glucose metabolic process |
C | 0006096 | biological_process | glycolytic process |
C | 0016491 | molecular_function | oxidoreductase activity |
C | 0016620 | molecular_function | oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor |
C | 0020015 | cellular_component | glycosome |
C | 0050661 | molecular_function | NADP binding |
C | 0051287 | molecular_function | NAD binding |
D | 0004365 | molecular_function | glyceraldehyde-3-phosphate dehydrogenase (NAD+) (phosphorylating) activity |
D | 0005829 | cellular_component | cytosol |
D | 0006006 | biological_process | glucose metabolic process |
D | 0006096 | biological_process | glycolytic process |
D | 0016491 | molecular_function | oxidoreductase activity |
D | 0016620 | molecular_function | oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor |
D | 0020015 | cellular_component | glycosome |
D | 0050661 | molecular_function | NADP binding |
D | 0051287 | molecular_function | NAD binding |
Functional Information from PDB Data
site_id | AC1 |
Number of Residues | 23 |
Details | BINDING SITE FOR RESIDUE NAD C 1360 |
Chain | Residue |
B | VAL206 |
C | SER110 |
C | THR111 |
C | GLY112 |
C | SER134 |
C | ALA135 |
C | CYS166 |
C | ALA198 |
C | ASN335 |
C | TYR339 |
C | CYX2166 |
C | GLY9 |
C | HOH2211 |
C | HOH2222 |
C | HOH2230 |
C | HOH2274 |
C | GLY11 |
C | ARG12 |
C | ILE13 |
C | ASP38 |
C | MET39 |
C | ALA90 |
C | GLN91 |
site_id | AC2 |
Number of Residues | 26 |
Details | BINDING SITE FOR RESIDUE NAD D 1361 |
Chain | Residue |
D | ASN8 |
D | GLY9 |
D | GLY11 |
D | ARG12 |
D | ILE13 |
D | VAL37 |
D | ASP38 |
D | MET39 |
D | ALA90 |
D | GLN91 |
D | SER110 |
D | THR111 |
D | GLY112 |
D | LEU113 |
D | SER134 |
D | ALA135 |
D | ALA198 |
D | ASN335 |
D | TYR339 |
D | CYX3166 |
D | HOH3168 |
D | HOH3174 |
D | HOH3191 |
D | HOH3192 |
D | HOH3216 |
D | HOH3301 |
site_id | AC3 |
Number of Residues | 19 |
Details | BINDING SITE FOR RESIDUE NAD B 1362 |
Chain | Residue |
B | GLY9 |
B | GLY11 |
B | ARG12 |
B | ILE13 |
B | ASP38 |
B | MET39 |
B | ALA90 |
B | ARG92 |
B | LEU113 |
B | ALA135 |
B | CYS166 |
B | ALA198 |
B | ASN335 |
B | TYR339 |
B | CYX1166 |
B | HOH1450 |
B | HOH1465 |
B | HOH1516 |
C | VAL206 |
site_id | AC4 |
Number of Residues | 8 |
Details | BINDING SITE FOR RESIDUE CYX B 1166 |
Chain | Residue |
B | CYS166 |
B | THR167 |
B | HIS194 |
B | THR197 |
B | THR226 |
B | SER247 |
B | ARG249 |
B | NAD1362 |
site_id | AC5 |
Number of Residues | 13 |
Details | BINDING SITE FOR RESIDUE CYX C 2166 |
Chain | Residue |
C | SER165 |
C | CYS166 |
C | THR167 |
C | HIS194 |
C | THR197 |
C | THR199 |
C | THR225 |
C | THR226 |
C | SER247 |
C | ARG249 |
C | ASN335 |
C | NAD1360 |
C | HOH2274 |
site_id | AC6 |
Number of Residues | 7 |
Details | BINDING SITE FOR RESIDUE CYX D 3166 |
Chain | Residue |
D | CYS166 |
D | HIS194 |
D | THR197 |
D | THR199 |
D | ARG249 |
D | ASN335 |
D | NAD1361 |
Functional Information from PROSITE/UniProt
site_id | PS00071 |
Number of Residues | 8 |
Details | GAPDH Glyceraldehyde 3-phosphate dehydrogenase active site. ASCTTNcL |
Chain | Residue | Details |
A | ALA164-LEU171 |
Functional Information from SwissProt/UniProt
site_id | SWS_FT_FI1 |
Number of Residues | 4 |
Details | ACT_SITE: Nucleophile |
Chain | Residue | Details |
A | CYS166 | |
B | CYS166 | |
C | CYS166 | |
D | CYS166 |
site_id | SWS_FT_FI2 |
Number of Residues | 20 |
Details | BINDING: BINDING => ECO:0000269|PubMed:12795610, ECO:0000269|PubMed:14622286 |
Chain | Residue | Details |
A | ARG12 | |
B | ASN335 | |
C | ARG12 | |
C | ASP38 | |
C | GLN91 | |
C | SER134 | |
C | ASN335 | |
D | ARG12 | |
D | ASP38 | |
D | GLN91 | |
D | SER134 | |
A | ASP38 | |
D | ASN335 | |
A | GLN91 | |
A | SER134 | |
A | ASN335 | |
B | ARG12 | |
B | ASP38 | |
B | GLN91 | |
B | SER134 |
site_id | SWS_FT_FI3 |
Number of Residues | 16 |
Details | BINDING: |
Chain | Residue | Details |
A | SER165 | |
C | THR197 | |
C | THR226 | |
C | ARG249 | |
D | SER165 | |
D | THR197 | |
D | THR226 | |
D | ARG249 | |
A | THR197 | |
A | THR226 | |
A | ARG249 | |
B | SER165 | |
B | THR197 | |
B | THR226 | |
B | ARG249 | |
C | SER165 |
site_id | SWS_FT_FI4 |
Number of Residues | 4 |
Details | SITE: Activates thiol group during catalysis |
Chain | Residue | Details |
A | HIS194 | |
B | HIS194 | |
C | HIS194 | |
D | HIS194 |
Catalytic Information from CSA
site_id | CSA1 |
Number of Residues | 2 |
Details | Annotated By Reference To The Literature 1szj |
Chain | Residue | Details |
A | CYS166 | |
A | HIS194 |
site_id | CSA2 |
Number of Residues | 2 |
Details | Annotated By Reference To The Literature 1szj |
Chain | Residue | Details |
B | CYS166 | |
B | HIS194 |
site_id | CSA3 |
Number of Residues | 2 |
Details | Annotated By Reference To The Literature 1szj |
Chain | Residue | Details |
C | CYS166 | |
C | HIS194 |
site_id | CSA4 |
Number of Residues | 2 |
Details | Annotated By Reference To The Literature 1szj |
Chain | Residue | Details |
D | CYS166 | |
D | HIS194 |