4LZW
X-ray structure uridine phosphorylase from Vibrio cholerae in complex with thymidine at 1.29 A resolution
Functional Information from GO Data
| Chain | GOid | namespace | contents |
| A | 0003824 | molecular_function | catalytic activity |
| A | 0004850 | molecular_function | uridine phosphorylase activity |
| A | 0005737 | cellular_component | cytoplasm |
| A | 0009116 | biological_process | nucleoside metabolic process |
| A | 0009164 | biological_process | nucleoside catabolic process |
| A | 0009166 | biological_process | nucleotide catabolic process |
| A | 0016757 | molecular_function | glycosyltransferase activity |
| A | 0016763 | molecular_function | pentosyltransferase activity |
| A | 0044206 | biological_process | UMP salvage |
| A | 0046872 | molecular_function | metal ion binding |
| B | 0003824 | molecular_function | catalytic activity |
| B | 0004850 | molecular_function | uridine phosphorylase activity |
| B | 0005737 | cellular_component | cytoplasm |
| B | 0009116 | biological_process | nucleoside metabolic process |
| B | 0009164 | biological_process | nucleoside catabolic process |
| B | 0009166 | biological_process | nucleotide catabolic process |
| B | 0016757 | molecular_function | glycosyltransferase activity |
| B | 0016763 | molecular_function | pentosyltransferase activity |
| B | 0044206 | biological_process | UMP salvage |
| B | 0046872 | molecular_function | metal ion binding |
| C | 0003824 | molecular_function | catalytic activity |
| C | 0004850 | molecular_function | uridine phosphorylase activity |
| C | 0005737 | cellular_component | cytoplasm |
| C | 0009116 | biological_process | nucleoside metabolic process |
| C | 0009164 | biological_process | nucleoside catabolic process |
| C | 0009166 | biological_process | nucleotide catabolic process |
| C | 0016757 | molecular_function | glycosyltransferase activity |
| C | 0016763 | molecular_function | pentosyltransferase activity |
| C | 0044206 | biological_process | UMP salvage |
| C | 0046872 | molecular_function | metal ion binding |
| D | 0003824 | molecular_function | catalytic activity |
| D | 0004850 | molecular_function | uridine phosphorylase activity |
| D | 0005737 | cellular_component | cytoplasm |
| D | 0009116 | biological_process | nucleoside metabolic process |
| D | 0009164 | biological_process | nucleoside catabolic process |
| D | 0009166 | biological_process | nucleotide catabolic process |
| D | 0016757 | molecular_function | glycosyltransferase activity |
| D | 0016763 | molecular_function | pentosyltransferase activity |
| D | 0044206 | biological_process | UMP salvage |
| D | 0046872 | molecular_function | metal ion binding |
| E | 0003824 | molecular_function | catalytic activity |
| E | 0004850 | molecular_function | uridine phosphorylase activity |
| E | 0005737 | cellular_component | cytoplasm |
| E | 0009116 | biological_process | nucleoside metabolic process |
| E | 0009164 | biological_process | nucleoside catabolic process |
| E | 0009166 | biological_process | nucleotide catabolic process |
| E | 0016757 | molecular_function | glycosyltransferase activity |
| E | 0016763 | molecular_function | pentosyltransferase activity |
| E | 0044206 | biological_process | UMP salvage |
| E | 0046872 | molecular_function | metal ion binding |
| F | 0003824 | molecular_function | catalytic activity |
| F | 0004850 | molecular_function | uridine phosphorylase activity |
| F | 0005737 | cellular_component | cytoplasm |
| F | 0009116 | biological_process | nucleoside metabolic process |
| F | 0009164 | biological_process | nucleoside catabolic process |
| F | 0009166 | biological_process | nucleotide catabolic process |
| F | 0016757 | molecular_function | glycosyltransferase activity |
| F | 0016763 | molecular_function | pentosyltransferase activity |
| F | 0044206 | biological_process | UMP salvage |
| F | 0046872 | molecular_function | metal ion binding |
Functional Information from PDB Data
| site_id | AC1 |
| Number of Residues | 14 |
| Details | BINDING SITE FOR RESIDUE THM A 301 |
| Chain | Residue |
| A | THR93 |
| A | ILE219 |
| A | HOH476 |
| A | HOH681 |
| B | HIS7 |
| B | ARG47 |
| A | GLY95 |
| A | PHE161 |
| A | GLN165 |
| A | ARG167 |
| A | PHE194 |
| A | GLU195 |
| A | MET196 |
| A | GLU197 |
| site_id | AC2 |
| Number of Residues | 7 |
| Details | BINDING SITE FOR RESIDUE EOH A 302 |
| Chain | Residue |
| A | ARG178 |
| A | HOH601 |
| A | HOH676 |
| B | LEU120 |
| B | HOH425 |
| B | HOH715 |
| F | HOH616 |
| site_id | AC3 |
| Number of Residues | 4 |
| Details | BINDING SITE FOR RESIDUE EOH A 303 |
| Chain | Residue |
| A | MET125 |
| A | GLU126 |
| A | HOH505 |
| F | MET125 |
| site_id | AC4 |
| Number of Residues | 4 |
| Details | BINDING SITE FOR RESIDUE CL A 304 |
| Chain | Residue |
| A | GLY25 |
| A | ASP26 |
| A | ARG29 |
| A | HOH493 |
| site_id | AC5 |
| Number of Residues | 6 |
| Details | BINDING SITE FOR RESIDUE NA A 305 |
| Chain | Residue |
| A | GLU48 |
| A | ILE68 |
| A | SER72 |
| B | GLU48 |
| B | ILE68 |
| B | SER72 |
| site_id | AC6 |
| Number of Residues | 1 |
| Details | BINDING SITE FOR RESIDUE CL A 306 |
| Chain | Residue |
| A | ASN221 |
| site_id | AC7 |
| Number of Residues | 6 |
| Details | BINDING SITE FOR RESIDUE MG A 307 |
| Chain | Residue |
| A | GLN180 |
| A | HOH513 |
| A | HOH562 |
| A | HOH621 |
| A | HOH688 |
| C | HOH656 |
| site_id | AC8 |
| Number of Residues | 14 |
| Details | BINDING SITE FOR RESIDUE THM B 301 |
| Chain | Residue |
| A | HIS7 |
| A | ARG47 |
| A | HOH516 |
| B | THR93 |
| B | GLY95 |
| B | PHE161 |
| B | GLN165 |
| B | ARG167 |
| B | PHE194 |
| B | GLU195 |
| B | MET196 |
| B | ILE220 |
| B | HOH426 |
| B | HOH442 |
| site_id | AC9 |
| Number of Residues | 2 |
| Details | BINDING SITE FOR RESIDUE EOH B 302 |
| Chain | Residue |
| B | MET125 |
| C | GLU126 |
| site_id | BC1 |
| Number of Residues | 6 |
| Details | BINDING SITE FOR RESIDUE EOH B 303 |
| Chain | Residue |
| A | LEU120 |
| A | HOH417 |
| A | HOH421 |
| B | ARG178 |
| B | HOH539 |
| B | HOH716 |
| site_id | BC2 |
| Number of Residues | 4 |
| Details | BINDING SITE FOR RESIDUE CL B 304 |
| Chain | Residue |
| B | GLY25 |
| B | ASP26 |
| B | ARG29 |
| B | HOH459 |
| site_id | BC3 |
| Number of Residues | 5 |
| Details | BINDING SITE FOR RESIDUE MG B 305 |
| Chain | Residue |
| B | GLN180 |
| B | HOH454 |
| B | HOH503 |
| B | HOH524 |
| B | HOH559 |
| site_id | BC4 |
| Number of Residues | 15 |
| Details | BINDING SITE FOR RESIDUE THM C 301 |
| Chain | Residue |
| C | THR93 |
| C | GLY95 |
| C | PHE161 |
| C | GLN165 |
| C | ARG167 |
| C | PHE194 |
| C | GLU195 |
| C | MET196 |
| C | GLU197 |
| C | ILE220 |
| C | HOH410 |
| C | HOH494 |
| C | HOH591 |
| D | HIS7 |
| D | ARG47 |
| site_id | BC5 |
| Number of Residues | 7 |
| Details | BINDING SITE FOR RESIDUE EDO C 302 |
| Chain | Residue |
| B | HOH677 |
| C | ARG178 |
| C | HOH429 |
| C | HOH433 |
| C | HOH757 |
| C | HOH758 |
| D | LEU120 |
| site_id | BC6 |
| Number of Residues | 4 |
| Details | BINDING SITE FOR RESIDUE CL C 303 |
| Chain | Residue |
| C | GLY25 |
| C | ASP26 |
| C | ARG29 |
| C | HOH480 |
| site_id | BC7 |
| Number of Residues | 6 |
| Details | BINDING SITE FOR RESIDUE NA C 304 |
| Chain | Residue |
| C | GLU48 |
| C | ILE68 |
| C | SER72 |
| D | GLU48 |
| D | ILE68 |
| D | SER72 |
| site_id | BC8 |
| Number of Residues | 5 |
| Details | BINDING SITE FOR RESIDUE MG C 305 |
| Chain | Residue |
| C | MG306 |
| C | HOH486 |
| C | HOH492 |
| C | HOH561 |
| C | HOH660 |
| site_id | BC9 |
| Number of Residues | 5 |
| Details | BINDING SITE FOR RESIDUE MG C 306 |
| Chain | Residue |
| C | ASN102 |
| C | MG305 |
| C | HOH486 |
| C | HOH488 |
| C | HOH492 |
| site_id | CC1 |
| Number of Residues | 17 |
| Details | BINDING SITE FOR RESIDUE THM D 301 |
| Chain | Residue |
| C | HIS7 |
| C | ARG47 |
| D | ILE68 |
| D | THR93 |
| D | GLY95 |
| D | PHE161 |
| D | GLN165 |
| D | ARG167 |
| D | PHE194 |
| D | GLU195 |
| D | MET196 |
| D | GLU197 |
| D | ILE220 |
| D | HOH407 |
| D | HOH445 |
| D | HOH456 |
| D | HOH569 |
| site_id | CC2 |
| Number of Residues | 5 |
| Details | BINDING SITE FOR RESIDUE EOH D 302 |
| Chain | Residue |
| C | LEU120 |
| C | HOH437 |
| C | HOH761 |
| D | ARG178 |
| D | HOH697 |
| site_id | CC3 |
| Number of Residues | 5 |
| Details | BINDING SITE FOR RESIDUE CL D 303 |
| Chain | Residue |
| C | HOH590 |
| D | GLY25 |
| D | ASP26 |
| D | ARG29 |
| D | HOH466 |
| site_id | CC4 |
| Number of Residues | 4 |
| Details | BINDING SITE FOR RESIDUE MG D 304 |
| Chain | Residue |
| D | MG305 |
| D | HOH470 |
| D | HOH528 |
| D | HOH568 |
| site_id | CC5 |
| Number of Residues | 5 |
| Details | BINDING SITE FOR RESIDUE MG D 305 |
| Chain | Residue |
| D | ASN102 |
| D | MG304 |
| D | HOH470 |
| D | HOH528 |
| D | HOH666 |
| site_id | CC6 |
| Number of Residues | 13 |
| Details | BINDING SITE FOR RESIDUE THM E 301 |
| Chain | Residue |
| E | THR93 |
| E | GLY95 |
| E | PHE161 |
| E | GLN165 |
| E | ARG167 |
| E | PHE194 |
| E | GLU195 |
| E | MET196 |
| E | GLU197 |
| E | HOH432 |
| E | HOH448 |
| F | HIS7 |
| F | ARG47 |
| site_id | CC7 |
| Number of Residues | 5 |
| Details | BINDING SITE FOR RESIDUE EDO E 302 |
| Chain | Residue |
| E | MET183 |
| E | GLN187 |
| E | HOH430 |
| E | HOH599 |
| E | HOH635 |
| site_id | CC8 |
| Number of Residues | 7 |
| Details | BINDING SITE FOR RESIDUE EOH E 303 |
| Chain | Residue |
| E | ARG178 |
| E | HOH676 |
| E | HOH684 |
| E | HOH706 |
| F | LEU120 |
| F | HOH416 |
| F | HOH422 |
| site_id | CC9 |
| Number of Residues | 5 |
| Details | BINDING SITE FOR RESIDUE CL E 304 |
| Chain | Residue |
| E | GLY25 |
| E | ASP26 |
| E | ARG29 |
| E | HOH493 |
| F | HOH488 |
| site_id | DC1 |
| Number of Residues | 6 |
| Details | BINDING SITE FOR RESIDUE MG E 305 |
| Chain | Residue |
| E | GLN180 |
| E | HOH468 |
| E | HOH562 |
| E | HOH574 |
| E | HOH619 |
| E | HOH622 |
| site_id | DC2 |
| Number of Residues | 15 |
| Details | BINDING SITE FOR RESIDUE THM F 301 |
| Chain | Residue |
| E | HIS7 |
| E | ARG47 |
| F | THR93 |
| F | GLY95 |
| F | PHE161 |
| F | GLN165 |
| F | ARG167 |
| F | PHE194 |
| F | GLU195 |
| F | MET196 |
| F | GLU197 |
| F | ILE219 |
| F | ILE220 |
| F | HOH480 |
| F | HOH611 |
| site_id | DC3 |
| Number of Residues | 7 |
| Details | BINDING SITE FOR RESIDUE EOH F 302 |
| Chain | Residue |
| A | HOH600 |
| E | LEU120 |
| E | HOH421 |
| E | HOH423 |
| F | ARG178 |
| F | HOH598 |
| F | HOH685 |
| site_id | DC4 |
| Number of Residues | 5 |
| Details | BINDING SITE FOR RESIDUE CL F 303 |
| Chain | Residue |
| F | GLY25 |
| F | ASP26 |
| F | ARG29 |
| F | HOH585 |
| F | HOH686 |
| site_id | DC5 |
| Number of Residues | 6 |
| Details | BINDING SITE FOR RESIDUE NA F 304 |
| Chain | Residue |
| E | GLU48 |
| E | ILE68 |
| E | SER72 |
| F | GLU48 |
| F | ILE68 |
| F | SER72 |
| site_id | DC6 |
| Number of Residues | 3 |
| Details | BINDING SITE FOR RESIDUE CL F 305 |
| Chain | Residue |
| F | ASN221 |
| F | LYS225 |
| F | HOH569 |
Functional Information from PROSITE/UniProt
| site_id | PS01232 |
| Number of Residues | 16 |
| Details | PNP_UDP_1 Purine and other phosphorylases family 1 signature. StGIGgPStSIaveEL |
| Chain | Residue | Details |
| A | SER65-LEU80 |
