5LHV
X-ray structure of uridine phosphorylase from Vibrio cholerae in complex with uridine and sulfate ion at 1.29 A resolution
Functional Information from GO Data
| Chain | GOid | namespace | contents |
| A | 0003824 | molecular_function | catalytic activity |
| A | 0004731 | molecular_function | purine-nucleoside phosphorylase activity |
| A | 0004850 | molecular_function | uridine phosphorylase activity |
| A | 0005737 | cellular_component | cytoplasm |
| A | 0005829 | cellular_component | cytosol |
| A | 0006152 | biological_process | purine nucleoside catabolic process |
| A | 0006218 | biological_process | uridine catabolic process |
| 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 | 0004731 | molecular_function | purine-nucleoside phosphorylase activity |
| B | 0004850 | molecular_function | uridine phosphorylase activity |
| B | 0005737 | cellular_component | cytoplasm |
| B | 0005829 | cellular_component | cytosol |
| B | 0006152 | biological_process | purine nucleoside catabolic process |
| B | 0006218 | biological_process | uridine catabolic process |
| 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 | 0004731 | molecular_function | purine-nucleoside phosphorylase activity |
| C | 0004850 | molecular_function | uridine phosphorylase activity |
| C | 0005737 | cellular_component | cytoplasm |
| C | 0005829 | cellular_component | cytosol |
| C | 0006152 | biological_process | purine nucleoside catabolic process |
| C | 0006218 | biological_process | uridine catabolic process |
| 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 | 0004731 | molecular_function | purine-nucleoside phosphorylase activity |
| D | 0004850 | molecular_function | uridine phosphorylase activity |
| D | 0005737 | cellular_component | cytoplasm |
| D | 0005829 | cellular_component | cytosol |
| D | 0006152 | biological_process | purine nucleoside catabolic process |
| D | 0006218 | biological_process | uridine catabolic process |
| 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 | 0004731 | molecular_function | purine-nucleoside phosphorylase activity |
| E | 0004850 | molecular_function | uridine phosphorylase activity |
| E | 0005737 | cellular_component | cytoplasm |
| E | 0005829 | cellular_component | cytosol |
| E | 0006152 | biological_process | purine nucleoside catabolic process |
| E | 0006218 | biological_process | uridine catabolic process |
| 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 | 0004731 | molecular_function | purine-nucleoside phosphorylase activity |
| F | 0004850 | molecular_function | uridine phosphorylase activity |
| F | 0005737 | cellular_component | cytoplasm |
| F | 0005829 | cellular_component | cytosol |
| F | 0006152 | biological_process | purine nucleoside catabolic process |
| F | 0006218 | biological_process | uridine catabolic process |
| 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 | 10 |
| Details | binding site for residue SO4 A 301 |
| Chain | Residue |
| A | GLY25 |
| B | ARG47 |
| A | ARG29 |
| A | ARG90 |
| A | VAL91 |
| A | GLY92 |
| A | THR93 |
| A | URI303 |
| A | HOH403 |
| A | HOH404 |
| site_id | AC2 |
| Number of Residues | 6 |
| Details | binding site for residue SO4 A 302 |
| Chain | Residue |
| A | ARG177 |
| A | HOH407 |
| A | HOH468 |
| A | HOH518 |
| C | ARG177 |
| E | ARG177 |
| site_id | AC3 |
| Number of Residues | 19 |
| Details | binding site for residue URI A 303 |
| Chain | Residue |
| A | ARG90 |
| A | THR93 |
| A | THR94 |
| A | GLY95 |
| A | PHE161 |
| A | GLN165 |
| A | ARG167 |
| A | GLU195 |
| A | MET196 |
| A | GLU197 |
| A | SO4301 |
| A | URA304 |
| A | HOH401 |
| A | HOH402 |
| A | HOH403 |
| A | HOH404 |
| A | HOH436 |
| A | HOH444 |
| B | HIS7 |
| site_id | AC4 |
| Number of Residues | 11 |
| Details | binding site for residue URA A 304 |
| Chain | Residue |
| A | THR94 |
| A | GLY95 |
| A | GLN165 |
| A | ARG167 |
| A | PHE194 |
| A | GLU195 |
| A | MET196 |
| A | ILE220 |
| A | URI303 |
| A | HOH404 |
| A | HOH436 |
| site_id | AC5 |
| Number of Residues | 5 |
| Details | binding site for residue MG A 305 |
| Chain | Residue |
| A | HOH412 |
| A | HOH518 |
| A | HOH646 |
| C | HOH465 |
| C | HOH658 |
| site_id | AC6 |
| Number of Residues | 2 |
| Details | binding site for residue CL A 306 |
| Chain | Residue |
| A | PHE133 |
| F | HOH524 |
| site_id | AC7 |
| Number of Residues | 6 |
| Details | binding site for residue NA A 307 |
| Chain | Residue |
| A | GLU48 |
| A | ILE68 |
| A | SER72 |
| B | GLU48 |
| B | ILE68 |
| B | SER72 |
| site_id | AC8 |
| Number of Residues | 7 |
| Details | binding site for residue GOL A 308 |
| Chain | Residue |
| A | ARG178 |
| A | GLU185 |
| A | HOH415 |
| A | HOH423 |
| E | ARG177 |
| F | PRO124 |
| F | GLU126 |
| site_id | AC9 |
| Number of Residues | 10 |
| Details | binding site for residue SO4 B 301 |
| Chain | Residue |
| A | ARG47 |
| B | GLY25 |
| B | ARG29 |
| B | ARG90 |
| B | VAL91 |
| B | GLY92 |
| B | THR93 |
| B | URI303 |
| B | HOH401 |
| B | HOH421 |
| site_id | AD1 |
| Number of Residues | 7 |
| Details | binding site for residue SO4 B 302 |
| Chain | Residue |
| B | ARG177 |
| B | HOH404 |
| B | HOH469 |
| B | HOH513 |
| B | HOH542 |
| D | ARG177 |
| F | ARG177 |
| site_id | AD2 |
| Number of Residues | 20 |
| Details | binding site for residue URI B 303 |
| Chain | Residue |
| B | HOH420 |
| B | HOH421 |
| B | HOH431 |
| B | HOH466 |
| A | HIS7 |
| B | ARG90 |
| B | THR93 |
| B | THR94 |
| B | GLY95 |
| B | PHE161 |
| B | GLN165 |
| B | ARG167 |
| B | GLU195 |
| B | MET196 |
| B | GLU197 |
| B | ILE220 |
| B | SO4301 |
| B | URA304 |
| B | HOH401 |
| B | HOH410 |
| site_id | AD3 |
| Number of Residues | 11 |
| Details | binding site for residue URA B 304 |
| Chain | Residue |
| B | THR93 |
| B | THR94 |
| B | GLY95 |
| B | GLN165 |
| B | ARG167 |
| B | GLU195 |
| B | MET196 |
| B | ILE220 |
| B | URI303 |
| B | HOH401 |
| B | HOH431 |
| site_id | AD4 |
| Number of Residues | 6 |
| Details | binding site for residue MG B 305 |
| Chain | Residue |
| B | HOH419 |
| B | HOH542 |
| B | HOH648 |
| F | HOH558 |
| F | HOH643 |
| F | HOH660 |
| site_id | AD5 |
| Number of Residues | 2 |
| Details | binding site for residue CL B 306 |
| Chain | Residue |
| B | PHE133 |
| B | HOH507 |
| site_id | AD6 |
| Number of Residues | 7 |
| Details | binding site for residue GOL B 307 |
| Chain | Residue |
| B | ARG178 |
| B | GLU185 |
| B | HOH418 |
| B | HOH437 |
| C | PRO124 |
| C | GLU126 |
| D | ARG177 |
| site_id | AD7 |
| Number of Residues | 10 |
| Details | binding site for residue SO4 C 301 |
| Chain | Residue |
| C | GLY25 |
| C | ARG29 |
| C | ARG90 |
| C | VAL91 |
| C | GLY92 |
| C | THR93 |
| C | URI302 |
| C | HOH401 |
| C | HOH402 |
| D | ARG47 |
| site_id | AD8 |
| Number of Residues | 19 |
| Details | binding site for residue URI C 302 |
| Chain | Residue |
| C | ARG90 |
| C | THR93 |
| C | THR94 |
| C | GLY95 |
| C | PHE161 |
| C | GLN165 |
| C | ARG167 |
| C | GLU195 |
| C | MET196 |
| C | GLU197 |
| C | SO4301 |
| C | URA303 |
| C | HOH401 |
| C | HOH402 |
| C | HOH408 |
| C | HOH410 |
| C | HOH419 |
| C | HOH428 |
| D | HIS7 |
| site_id | AD9 |
| Number of Residues | 12 |
| Details | binding site for residue URA C 303 |
| Chain | Residue |
| C | THR94 |
| C | GLY95 |
| C | PHE161 |
| C | GLN165 |
| C | ARG167 |
| C | PHE194 |
| C | GLU195 |
| C | MET196 |
| C | ILE220 |
| C | URI302 |
| C | HOH402 |
| C | HOH428 |
| site_id | AE1 |
| Number of Residues | 5 |
| Details | binding site for residue MG C 304 |
| Chain | Residue |
| C | HOH546 |
| C | HOH555 |
| C | HOH584 |
| C | HOH631 |
| C | HOH643 |
| site_id | AE2 |
| Number of Residues | 2 |
| Details | binding site for residue CL C 305 |
| Chain | Residue |
| C | PHE133 |
| C | HOH519 |
| site_id | AE3 |
| Number of Residues | 6 |
| Details | binding site for residue NA C 306 |
| Chain | Residue |
| C | GLU48 |
| C | ILE68 |
| C | SER72 |
| D | GLU48 |
| D | ILE68 |
| D | SER72 |
| site_id | AE4 |
| Number of Residues | 7 |
| Details | binding site for residue GOL C 307 |
| Chain | Residue |
| A | ARG177 |
| B | PRO124 |
| B | GLU126 |
| C | ARG178 |
| C | GLU185 |
| C | HOH409 |
| C | HOH412 |
| site_id | AE5 |
| Number of Residues | 10 |
| Details | binding site for residue SO4 D 301 |
| Chain | Residue |
| C | ARG47 |
| D | GLY25 |
| D | ARG29 |
| D | ARG90 |
| D | VAL91 |
| D | GLY92 |
| D | THR93 |
| D | URI302 |
| D | HOH401 |
| D | HOH415 |
| site_id | AE6 |
| Number of Residues | 21 |
| Details | binding site for residue URI D 302 |
| Chain | Residue |
| C | HIS7 |
| D | ARG90 |
| D | THR93 |
| D | THR94 |
| D | GLY95 |
| D | PHE161 |
| D | GLN165 |
| D | ARG167 |
| D | PHE194 |
| D | GLU195 |
| D | MET196 |
| D | GLU197 |
| D | ILE220 |
| D | SO4301 |
| D | URA303 |
| D | HOH401 |
| D | HOH405 |
| D | HOH415 |
| D | HOH416 |
| D | HOH418 |
| D | HOH447 |
| site_id | AE7 |
| Number of Residues | 13 |
| Details | binding site for residue URA D 303 |
| Chain | Residue |
| D | THR93 |
| D | THR94 |
| D | GLY95 |
| D | PHE161 |
| D | GLN165 |
| D | ARG167 |
| D | PHE194 |
| D | GLU195 |
| D | MET196 |
| D | ILE220 |
| D | URI302 |
| D | HOH401 |
| D | HOH418 |
| site_id | AE8 |
| Number of Residues | 5 |
| Details | binding site for residue MG D 304 |
| Chain | Residue |
| B | HOH513 |
| B | HOH553 |
| B | HOH632 |
| B | HOH655 |
| D | HOH402 |
| site_id | AE9 |
| Number of Residues | 2 |
| Details | binding site for residue CL D 305 |
| Chain | Residue |
| D | PHE133 |
| D | HOH500 |
| site_id | AF1 |
| Number of Residues | 8 |
| Details | binding site for residue GOL D 306 |
| Chain | Residue |
| D | ARG178 |
| D | GLU185 |
| D | HOH408 |
| D | HOH410 |
| D | HOH555 |
| E | PRO124 |
| E | GLU126 |
| F | ARG177 |
| site_id | AF2 |
| Number of Residues | 11 |
| Details | binding site for residue SO4 E 301 |
| Chain | Residue |
| E | GLY25 |
| E | ARG29 |
| E | ARG90 |
| E | VAL91 |
| E | GLY92 |
| E | THR93 |
| E | URI302 |
| E | HOH401 |
| E | HOH414 |
| E | HOH468 |
| F | ARG47 |
| site_id | AF3 |
| Number of Residues | 20 |
| Details | binding site for residue URI E 302 |
| Chain | Residue |
| E | ARG90 |
| E | THR93 |
| E | THR94 |
| E | GLY95 |
| E | PHE161 |
| E | GLN165 |
| E | ARG167 |
| E | PHE194 |
| E | GLU195 |
| E | MET196 |
| E | GLU197 |
| E | SO4301 |
| E | URA303 |
| E | HOH401 |
| E | HOH414 |
| E | HOH424 |
| E | HOH443 |
| E | HOH463 |
| E | HOH468 |
| F | HIS7 |
| site_id | AF4 |
| Number of Residues | 13 |
| Details | binding site for residue URA E 303 |
| Chain | Residue |
| E | THR93 |
| E | THR94 |
| E | GLY95 |
| E | PHE161 |
| E | GLN165 |
| E | ARG167 |
| E | PHE194 |
| E | GLU195 |
| E | MET196 |
| E | ILE220 |
| E | URI302 |
| E | HOH401 |
| E | HOH463 |
| site_id | AF5 |
| Number of Residues | 5 |
| Details | binding site for residue MG E 304 |
| Chain | Residue |
| A | HOH468 |
| A | HOH483 |
| A | HOH635 |
| A | HOH639 |
| E | HOH412 |
| site_id | AF6 |
| Number of Residues | 3 |
| Details | binding site for residue CL E 305 |
| Chain | Residue |
| D | HOH501 |
| E | PHE133 |
| E | HOH632 |
| site_id | AF7 |
| Number of Residues | 6 |
| Details | binding site for residue NA E 306 |
| Chain | Residue |
| E | GLU48 |
| E | ILE68 |
| E | SER72 |
| F | GLU48 |
| F | ILE68 |
| F | SER72 |
| site_id | AF8 |
| Number of Residues | 7 |
| Details | binding site for residue GOL E 307 |
| Chain | Residue |
| C | ARG177 |
| D | PRO124 |
| D | GLU126 |
| E | ARG178 |
| E | GLU185 |
| E | HOH418 |
| E | HOH460 |
| site_id | AF9 |
| Number of Residues | 4 |
| Details | binding site for residue MG E 308 |
| Chain | Residue |
| E | HOH572 |
| E | HOH598 |
| E | HOH599 |
| E | HOH654 |
| site_id | AG1 |
| Number of Residues | 10 |
| Details | binding site for residue SO4 F 301 |
| Chain | Residue |
| E | ARG47 |
| F | GLY25 |
| F | ARG29 |
| F | ARG90 |
| F | VAL91 |
| F | GLY92 |
| F | THR93 |
| F | URI302 |
| F | HOH402 |
| F | HOH403 |
| site_id | AG2 |
| Number of Residues | 20 |
| Details | binding site for residue URI F 302 |
| Chain | Residue |
| E | HIS7 |
| F | ARG90 |
| F | THR93 |
| F | THR94 |
| F | GLY95 |
| F | PHE161 |
| F | GLN165 |
| F | ARG167 |
| F | GLU195 |
| F | MET196 |
| F | GLU197 |
| F | ILE220 |
| F | SO4301 |
| F | URA303 |
| F | HOH401 |
| F | HOH402 |
| F | HOH403 |
| F | HOH410 |
| F | HOH430 |
| F | HOH452 |
| site_id | AG3 |
| Number of Residues | 12 |
| Details | binding site for residue URA F 303 |
| Chain | Residue |
| F | THR93 |
| F | THR94 |
| F | GLY95 |
| F | PHE161 |
| F | GLN165 |
| F | ARG167 |
| F | GLU195 |
| F | MET196 |
| F | ILE220 |
| F | URI302 |
| F | HOH403 |
| F | HOH452 |
| site_id | AG4 |
| Number of Residues | 4 |
| Details | binding site for residue MG F 304 |
| Chain | Residue |
| B | HOH469 |
| D | HOH492 |
| D | HOH612 |
| F | HOH425 |
| site_id | AG5 |
| Number of Residues | 2 |
| Details | binding site for residue CL F 305 |
| Chain | Residue |
| A | HOH526 |
| F | PHE133 |
| site_id | AG6 |
| Number of Residues | 7 |
| Details | binding site for residue GOL F 306 |
| Chain | Residue |
| A | PRO124 |
| A | GLU126 |
| B | ARG177 |
| F | ARG178 |
| F | GLU185 |
| F | HOH423 |
| F | HOH512 |
| site_id | AG7 |
| Number of Residues | 10 |
| Details | binding site for residue GOL F 307 |
| Chain | Residue |
| F | ASP132 |
| F | CYS205 |
| F | ALA206 |
| F | GLY209 |
| F | LEU210 |
| F | LYS211 |
| F | HOH407 |
| F | HOH421 |
| F | HOH515 |
| F | HOH625 |
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 |
