6Z9Z
Atomic resolution X-ray structure of the Uridine phosphorylase from Vibrio cholerae on crystals grown under microgravity
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 | 9 |
| Details | binding site for residue GOL A 301 |
| Chain | Residue |
| A | ILE68 |
| A | GLU195 |
| A | MET196 |
| A | GLU197 |
| A | HOH442 |
| A | HOH473 |
| A | HOH541 |
| A | HOH568 |
| B | HOH548 |
| site_id | AC2 |
| Number of Residues | 9 |
| Details | binding site for residue EDO A 302 |
| Chain | Residue |
| A | THR94 |
| A | GLY95 |
| A | PHE161 |
| A | GLN165 |
| A | ARG167 |
| A | PHE194 |
| A | ILE220 |
| A | HOH568 |
| A | HOH597 |
| site_id | AC3 |
| Number of Residues | 6 |
| Details | binding site for residue EDO A 303 |
| Chain | Residue |
| A | ARG178 |
| A | HOH440 |
| A | HOH455 |
| A | HOH482 |
| B | LEU120 |
| F | HOH414 |
| site_id | AC4 |
| Number of Residues | 6 |
| Details | binding site for residue NA A 304 |
| Chain | Residue |
| A | GLN180 |
| A | HOH423 |
| A | HOH428 |
| A | HOH435 |
| A | HOH551 |
| C | HOH675 |
| 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 | 9 |
| Details | binding site for residue GOL B 301 |
| Chain | Residue |
| A | HOH409 |
| B | ILE68 |
| B | GLU195 |
| B | MET196 |
| B | GLU197 |
| B | HOH421 |
| B | HOH440 |
| B | HOH481 |
| B | HOH578 |
| site_id | AC7 |
| Number of Residues | 5 |
| Details | binding site for residue EDO B 302 |
| Chain | Residue |
| B | ARG167 |
| B | TYR168 |
| B | ASP169 |
| B | HOH443 |
| B | HOH586 |
| site_id | AC8 |
| Number of Residues | 6 |
| Details | binding site for residue EDO B 303 |
| Chain | Residue |
| A | GLN82 |
| A | HOH465 |
| B | ASP169 |
| B | THR170 |
| B | PHE171 |
| B | HOH497 |
| site_id | AC9 |
| Number of Residues | 7 |
| Details | binding site for residue EDO B 304 |
| Chain | Residue |
| A | LEU120 |
| B | ARG178 |
| B | HOH436 |
| B | HOH451 |
| B | HOH492 |
| B | HOH617 |
| C | HOH456 |
| site_id | AD1 |
| Number of Residues | 3 |
| Details | binding site for residue NA B 305 |
| Chain | Residue |
| B | ASN102 |
| B | HOH469 |
| B | HOH654 |
| site_id | AD2 |
| Number of Residues | 6 |
| Details | binding site for residue EDO C 301 |
| Chain | Residue |
| C | ILE68 |
| C | MET196 |
| C | GLU197 |
| C | HOH430 |
| C | HOH566 |
| C | HOH607 |
| site_id | AD3 |
| Number of Residues | 6 |
| Details | binding site for residue EDO C 302 |
| Chain | Residue |
| C | ARG178 |
| C | HOH437 |
| C | HOH471 |
| C | HOH500 |
| C | HOH524 |
| D | LEU120 |
| site_id | AD4 |
| Number of Residues | 7 |
| Details | binding site for residue GOL C 303 |
| Chain | Residue |
| C | ARG167 |
| C | ASP169 |
| C | HOH450 |
| C | HOH468 |
| C | HOH484 |
| C | HOH572 |
| D | PHE6 |
| site_id | AD5 |
| 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 | AD6 |
| Number of Residues | 6 |
| Details | binding site for residue NA C 305 |
| Chain | Residue |
| C | GLN180 |
| C | HOH549 |
| C | HOH615 |
| C | HOH628 |
| E | HOH433 |
| E | HOH606 |
| site_id | AD7 |
| Number of Residues | 7 |
| Details | binding site for residue NA C 306 |
| Chain | Residue |
| C | HOH433 |
| C | HOH531 |
| C | HOH605 |
| C | HOH643 |
| C | HOH679 |
| B | HOH684 |
| B | HOH730 |
| site_id | AD8 |
| Number of Residues | 7 |
| Details | binding site for residue PEG C 307 |
| Chain | Residue |
| C | ASP38 |
| C | HOH412 |
| E | PHE42 |
| E | SER45 |
| E | EDO303 |
| E | HOH485 |
| E | HOH572 |
| site_id | AD9 |
| Number of Residues | 8 |
| Details | binding site for residue GOL D 301 |
| Chain | Residue |
| C | HIS7 |
| C | HOH408 |
| D | ILE68 |
| D | MET196 |
| D | GLU197 |
| D | HOH419 |
| D | HOH426 |
| D | HOH502 |
| site_id | AE1 |
| Number of Residues | 6 |
| Details | binding site for residue EDO D 302 |
| Chain | Residue |
| D | LEU36 |
| D | ASP38 |
| D | GLU55 |
| D | LEU56 |
| D | ASP57 |
| D | ARG249 |
| site_id | AE2 |
| Number of Residues | 6 |
| Details | binding site for residue NA D 303 |
| Chain | Residue |
| D | MET125 |
| D | PHE127 |
| D | HOH561 |
| E | MET125 |
| E | PHE127 |
| E | HOH560 |
| site_id | AE3 |
| Number of Residues | 6 |
| Details | binding site for residue NA D 304 |
| Chain | Residue |
| B | HOH439 |
| B | HOH693 |
| D | GLN180 |
| D | HOH532 |
| D | HOH543 |
| D | HOH547 |
| site_id | AE4 |
| Number of Residues | 2 |
| Details | binding site for residue MG D 305 |
| Chain | Residue |
| D | HOH454 |
| D | HOH519 |
| site_id | AE5 |
| Number of Residues | 7 |
| Details | binding site for residue PEG D 306 |
| Chain | Residue |
| C | LEU120 |
| D | ARG178 |
| D | HOH409 |
| D | HOH416 |
| D | HOH444 |
| D | HOH448 |
| D | HOH536 |
| site_id | AE6 |
| Number of Residues | 7 |
| Details | binding site for residue EDO E 301 |
| Chain | Residue |
| D | HOH405 |
| E | ARG178 |
| E | HOH431 |
| E | HOH444 |
| E | HOH471 |
| E | HOH551 |
| F | LEU120 |
| site_id | AE7 |
| Number of Residues | 8 |
| Details | binding site for residue GOL E 302 |
| Chain | Residue |
| E | ILE68 |
| E | MET196 |
| E | GLU197 |
| E | HOH417 |
| E | HOH420 |
| E | HOH443 |
| E | HOH498 |
| F | HIS7 |
| site_id | AE8 |
| Number of Residues | 6 |
| Details | binding site for residue EDO E 303 |
| Chain | Residue |
| C | PEG307 |
| C | HOH478 |
| E | GLN31 |
| E | TYR52 |
| E | HOH413 |
| E | HOH464 |
| site_id | AE9 |
| Number of Residues | 4 |
| Details | binding site for residue NA E 304 |
| Chain | Residue |
| E | HOH411 |
| E | HOH511 |
| E | HOH538 |
| E | HOH605 |
| site_id | AF1 |
| Number of Residues | 6 |
| Details | binding site for residue NA E 305 |
| Chain | Residue |
| A | HOH447 |
| A | HOH685 |
| E | GLN180 |
| E | HOH510 |
| E | HOH567 |
| E | HOH579 |
| site_id | AF2 |
| Number of Residues | 2 |
| Details | binding site for residue MG E 306 |
| Chain | Residue |
| E | HOH445 |
| E | HOH506 |
| site_id | AF3 |
| Number of Residues | 6 |
| Details | binding site for residue NA E 307 |
| Chain | Residue |
| E | GLU48 |
| E | ILE68 |
| E | SER72 |
| F | GLU48 |
| F | ILE68 |
| F | SER72 |
| site_id | AF4 |
| Number of Residues | 6 |
| Details | binding site for residue EDO F 301 |
| Chain | Residue |
| F | ILE68 |
| F | GLU197 |
| F | HOH409 |
| F | HOH422 |
| F | HOH488 |
| F | HOH572 |
| site_id | AF5 |
| Number of Residues | 6 |
| Details | binding site for residue EDO F 302 |
| Chain | Residue |
| E | LEU120 |
| F | ARG178 |
| F | HOH426 |
| F | HOH454 |
| F | HOH489 |
| F | HOH575 |
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 |
