4B8W
Crystal structure of human GDP-L-fucose synthase with bound NADP and GDP, tetragonal crystal form
Functional Information from GO Data
| Chain | GOid | namespace | contents |
| A | 0005515 | molecular_function | protein binding |
| A | 0005829 | cellular_component | cytosol |
| A | 0007159 | biological_process | leukocyte cell-cell adhesion |
| A | 0009055 | molecular_function | electron transfer activity |
| A | 0009226 | biological_process | nucleotide-sugar biosynthetic process |
| A | 0010595 | biological_process | positive regulation of endothelial cell migration |
| A | 0016491 | molecular_function | oxidoreductase activity |
| A | 0016853 | molecular_function | isomerase activity |
| A | 0019673 | biological_process | GDP-mannose metabolic process |
| A | 0042351 | biological_process | 'de novo' GDP-L-fucose biosynthetic process |
| A | 0042356 | molecular_function | GDP-4-dehydro-D-rhamnose reductase activity |
| A | 0042802 | molecular_function | identical protein binding |
| A | 0047918 | molecular_function | GDP-mannose 3,5-epimerase activity |
| A | 0050577 | molecular_function | GDP-L-fucose synthase activity |
| A | 0070062 | cellular_component | extracellular exosome |
| A | 1904906 | biological_process | positive regulation of endothelial cell-matrix adhesion via fibronectin |
| B | 0005515 | molecular_function | protein binding |
| B | 0005829 | cellular_component | cytosol |
| B | 0007159 | biological_process | leukocyte cell-cell adhesion |
| B | 0009055 | molecular_function | electron transfer activity |
| B | 0009226 | biological_process | nucleotide-sugar biosynthetic process |
| B | 0010595 | biological_process | positive regulation of endothelial cell migration |
| B | 0016491 | molecular_function | oxidoreductase activity |
| B | 0016853 | molecular_function | isomerase activity |
| B | 0019673 | biological_process | GDP-mannose metabolic process |
| B | 0042351 | biological_process | 'de novo' GDP-L-fucose biosynthetic process |
| B | 0042356 | molecular_function | GDP-4-dehydro-D-rhamnose reductase activity |
| B | 0042802 | molecular_function | identical protein binding |
| B | 0047918 | molecular_function | GDP-mannose 3,5-epimerase activity |
| B | 0050577 | molecular_function | GDP-L-fucose synthase activity |
| B | 0070062 | cellular_component | extracellular exosome |
| B | 1904906 | biological_process | positive regulation of endothelial cell-matrix adhesion via fibronectin |
Functional Information from PDB Data
| site_id | AC1 |
| Number of Residues | 22 |
| Details | BINDING SITE FOR RESIDUE NAP A 900 |
| Chain | Residue |
| A | GLY14 |
| A | LEU48 |
| A | LEU69 |
| A | ALA70 |
| A | ALA71 |
| A | MET93 |
| A | CYS112 |
| A | LEU113 |
| A | TYR143 |
| A | LYS147 |
| A | THR171 |
| A | SER16 |
| A | VAL173 |
| A | HIS186 |
| A | ARG320 |
| A | GLY17 |
| A | LEU18 |
| A | VAL19 |
| A | SER42 |
| A | SER43 |
| A | ALA46 |
| A | ASP47 |
| site_id | AC2 |
| Number of Residues | 16 |
| Details | BINDING SITE FOR RESIDUE GDP A 901 |
| Chain | Residue |
| A | GLY75 |
| A | LEU76 |
| A | PHE77 |
| A | ASN172 |
| A | GLY185 |
| A | HIS186 |
| A | VAL187 |
| A | VAL207 |
| A | TRP208 |
| A | PRO213 |
| A | ARG215 |
| A | ILE252 |
| A | SER276 |
| A | ASP277 |
| A | LYS282 |
| A | HOH2009 |
| site_id | AC3 |
| Number of Residues | 21 |
| Details | BINDING SITE FOR RESIDUE NAP B 900 |
| Chain | Residue |
| B | GLY14 |
| B | SER16 |
| B | GLY17 |
| B | LEU18 |
| B | VAL19 |
| B | SER42 |
| B | SER43 |
| B | ALA46 |
| B | ASP47 |
| B | LEU48 |
| B | LEU69 |
| B | ALA70 |
| B | ALA71 |
| B | CYS112 |
| B | LEU113 |
| B | TYR143 |
| B | LYS147 |
| B | THR171 |
| B | VAL173 |
| B | HIS186 |
| B | HIS266 |
| site_id | AC4 |
| Number of Residues | 10 |
| Details | BINDING SITE FOR RESIDUE GDP B 901 |
| Chain | Residue |
| B | ASN172 |
| B | GLY185 |
| B | HIS186 |
| B | VAL187 |
| B | VAL207 |
| B | TRP208 |
| B | ARG215 |
| B | SER276 |
| B | ASP277 |
| B | LYS282 |
Functional Information from SwissProt/UniProt
| site_id | SWS_FT_FI1 |
| Number of Residues | 2 |
| Details | ACT_SITE: Proton donor/acceptor => ECO:0000250 |
| Chain | Residue | Details |
| A | TYR143 | |
| B | TYR143 |
| site_id | SWS_FT_FI2 |
| Number of Residues | 6 |
| Details | BINDING: BINDING => ECO:0000269|PubMed:23774504, ECO:0000269|Ref.9 |
| Chain | Residue | Details |
| A | GLY14 | |
| A | LYS147 | |
| A | PRO170 | |
| B | GLY14 | |
| B | LYS147 | |
| B | PRO170 |
| site_id | SWS_FT_FI3 |
| Number of Residues | 2 |
| Details | BINDING: BINDING => ECO:0000269|Ref.9 |
| Chain | Residue | Details |
| A | HIS186 | |
| B | HIS186 |
| site_id | SWS_FT_FI4 |
| Number of Residues | 8 |
| Details | BINDING: BINDING => ECO:0000305|Ref.9 |
| Chain | Residue | Details |
| A | LYS194 | |
| A | TRP208 | |
| A | ARG215 | |
| A | ASP277 | |
| B | LYS194 | |
| B | TRP208 | |
| B | ARG215 | |
| B | ASP277 |
| site_id | SWS_FT_FI5 |
| Number of Residues | 4 |
| Details | SITE: Important for catalytic activity => ECO:0000250 |
| Chain | Residue | Details |
| A | SER114 | |
| A | CYS116 | |
| B | SER114 | |
| B | CYS116 |
| site_id | SWS_FT_FI6 |
| Number of Residues | 2 |
| Details | SITE: Lowers pKa of active site Tyr => ECO:0000250 |
| Chain | Residue | Details |
| A | LYS147 | |
| B | LYS147 |
