4R2X
Unique conformation of uridine and asymmetry of the hexameric molecule revealed in the high-resolution structures of Shewanella oneidensis uridine phosphorylase in the free form and in complex with uridine
Replaces: 4HENFunctional 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 | 0005829 | cellular_component | cytosol |
| A | 0009116 | biological_process | nucleoside metabolic process |
| A | 0009164 | biological_process | nucleoside catabolic process |
| A | 0009166 | biological_process | nucleotide catabolic process |
| A | 0016740 | molecular_function | transferase activity |
| A | 0016757 | molecular_function | glycosyltransferase activity |
| A | 0016763 | molecular_function | pentosyltransferase activity |
| A | 0044206 | biological_process | UMP salvage |
| B | 0003824 | molecular_function | catalytic activity |
| B | 0004850 | molecular_function | uridine phosphorylase activity |
| B | 0005737 | cellular_component | cytoplasm |
| B | 0005829 | cellular_component | cytosol |
| B | 0009116 | biological_process | nucleoside metabolic process |
| B | 0009164 | biological_process | nucleoside catabolic process |
| B | 0009166 | biological_process | nucleotide catabolic process |
| B | 0016740 | molecular_function | transferase activity |
| B | 0016757 | molecular_function | glycosyltransferase activity |
| B | 0016763 | molecular_function | pentosyltransferase activity |
| B | 0044206 | biological_process | UMP salvage |
| C | 0003824 | molecular_function | catalytic activity |
| C | 0004850 | molecular_function | uridine phosphorylase activity |
| C | 0005737 | cellular_component | cytoplasm |
| C | 0005829 | cellular_component | cytosol |
| C | 0009116 | biological_process | nucleoside metabolic process |
| C | 0009164 | biological_process | nucleoside catabolic process |
| C | 0009166 | biological_process | nucleotide catabolic process |
| C | 0016740 | molecular_function | transferase activity |
| C | 0016757 | molecular_function | glycosyltransferase activity |
| C | 0016763 | molecular_function | pentosyltransferase activity |
| C | 0044206 | biological_process | UMP salvage |
| D | 0003824 | molecular_function | catalytic activity |
| D | 0004850 | molecular_function | uridine phosphorylase activity |
| D | 0005737 | cellular_component | cytoplasm |
| D | 0005829 | cellular_component | cytosol |
| D | 0009116 | biological_process | nucleoside metabolic process |
| D | 0009164 | biological_process | nucleoside catabolic process |
| D | 0009166 | biological_process | nucleotide catabolic process |
| D | 0016740 | molecular_function | transferase activity |
| D | 0016757 | molecular_function | glycosyltransferase activity |
| D | 0016763 | molecular_function | pentosyltransferase activity |
| D | 0044206 | biological_process | UMP salvage |
| E | 0003824 | molecular_function | catalytic activity |
| E | 0004850 | molecular_function | uridine phosphorylase activity |
| E | 0005737 | cellular_component | cytoplasm |
| E | 0005829 | cellular_component | cytosol |
| E | 0009116 | biological_process | nucleoside metabolic process |
| E | 0009164 | biological_process | nucleoside catabolic process |
| E | 0009166 | biological_process | nucleotide catabolic process |
| E | 0016740 | molecular_function | transferase activity |
| E | 0016757 | molecular_function | glycosyltransferase activity |
| E | 0016763 | molecular_function | pentosyltransferase activity |
| E | 0044206 | biological_process | UMP salvage |
| F | 0003824 | molecular_function | catalytic activity |
| F | 0004850 | molecular_function | uridine phosphorylase activity |
| F | 0005737 | cellular_component | cytoplasm |
| F | 0005829 | cellular_component | cytosol |
| F | 0009116 | biological_process | nucleoside metabolic process |
| F | 0009164 | biological_process | nucleoside catabolic process |
| F | 0009166 | biological_process | nucleotide catabolic process |
| F | 0016740 | molecular_function | transferase activity |
| F | 0016757 | molecular_function | glycosyltransferase activity |
| F | 0016763 | molecular_function | pentosyltransferase activity |
| F | 0044206 | biological_process | UMP salvage |
Functional Information from PDB Data
| site_id | AC1 |
| Number of Residues | 8 |
| Details | BINDING SITE FOR RESIDUE SO4 C 301 |
| Chain | Residue |
| C | GLY23 |
| C | ARG27 |
| C | ARG88 |
| C | VAL89 |
| C | GLY90 |
| C | THR91 |
| C | GOL303 |
| D | ARG45 |
| site_id | AC2 |
| Number of Residues | 5 |
| Details | BINDING SITE FOR RESIDUE CL C 302 |
| Chain | Residue |
| C | GLN163 |
| C | ARG165 |
| C | HOH434 |
| C | HOH485 |
| C | GLY93 |
| site_id | AC3 |
| Number of Residues | 11 |
| Details | BINDING SITE FOR RESIDUE GOL C 303 |
| Chain | Residue |
| C | ILE66 |
| C | ARG88 |
| C | THR91 |
| C | GLU193 |
| C | MET194 |
| C | GLU195 |
| C | SO4301 |
| C | HOH436 |
| C | HOH485 |
| D | ARG45 |
| D | HOH461 |
| site_id | AC4 |
| Number of Residues | 8 |
| Details | BINDING SITE FOR RESIDUE GOL C 304 |
| Chain | Residue |
| C | ASN130 |
| C | ALA204 |
| C | HOH405 |
| C | HOH411 |
| C | HOH435 |
| C | HOH465 |
| C | HOH482 |
| C | HOH587 |
| site_id | AC5 |
| Number of Residues | 6 |
| Details | BINDING SITE FOR RESIDUE GOL C 305 |
| Chain | Residue |
| C | ARG176 |
| C | GLU183 |
| C | HOH452 |
| E | ARG175 |
| F | PRO122 |
| F | GLU124 |
| site_id | AC6 |
| Number of Residues | 7 |
| Details | BINDING SITE FOR RESIDUE GOL C 306 |
| Chain | Residue |
| C | ALA140 |
| C | ASP143 |
| C | ALA144 |
| C | ALA244 |
| C | LYS248 |
| C | HOH441 |
| C | HOH513 |
| site_id | AC7 |
| Number of Residues | 8 |
| Details | BINDING SITE FOR RESIDUE SO4 D 301 |
| Chain | Residue |
| C | ARG45 |
| D | GLY23 |
| D | ARG27 |
| D | ARG88 |
| D | VAL89 |
| D | GLY90 |
| D | THR91 |
| D | GOL303 |
| site_id | AC8 |
| Number of Residues | 5 |
| Details | BINDING SITE FOR RESIDUE CL D 302 |
| Chain | Residue |
| D | GLY93 |
| D | GLN163 |
| D | ARG165 |
| D | HOH403 |
| D | HOH460 |
| site_id | AC9 |
| Number of Residues | 11 |
| Details | BINDING SITE FOR RESIDUE GOL D 303 |
| Chain | Residue |
| C | ARG45 |
| C | HOH455 |
| D | ILE66 |
| D | ARG88 |
| D | THR91 |
| D | GLU193 |
| D | MET194 |
| D | GLU195 |
| D | SO4301 |
| D | HOH452 |
| D | HOH460 |
| site_id | BC1 |
| Number of Residues | 7 |
| Details | BINDING SITE FOR RESIDUE GOL D 304 |
| Chain | Residue |
| A | PRO122 |
| A | GLU124 |
| B | ARG175 |
| D | ARG176 |
| D | GLU183 |
| D | HOH468 |
| D | HOH560 |
| site_id | BC2 |
| Number of Residues | 8 |
| Details | BINDING SITE FOR RESIDUE GOL D 305 |
| Chain | Residue |
| D | ASN130 |
| D | ALA204 |
| D | HOH407 |
| D | HOH420 |
| D | HOH429 |
| D | HOH450 |
| D | HOH476 |
| D | HOH597 |
| site_id | BC3 |
| Number of Residues | 5 |
| Details | BINDING SITE FOR RESIDUE SO4 E 301 |
| Chain | Residue |
| A | ARG175 |
| C | ARG175 |
| E | ARG175 |
| E | HOH519 |
| E | HOH541 |
| site_id | BC4 |
| Number of Residues | 9 |
| Details | BINDING SITE FOR RESIDUE GOL E 302 |
| Chain | Residue |
| E | ILE66 |
| E | ARG88 |
| E | THR91 |
| E | GLU193 |
| E | MET194 |
| E | GLU195 |
| E | SO4303 |
| E | HOH449 |
| E | HOH562 |
| site_id | BC5 |
| Number of Residues | 11 |
| Details | BINDING SITE FOR RESIDUE SO4 E 303 |
| Chain | Residue |
| E | ARG27 |
| E | ARG88 |
| E | VAL89 |
| E | GLY90 |
| E | THR91 |
| E | GOL302 |
| E | HOH554 |
| E | HOH561 |
| E | HOH562 |
| F | ARG45 |
| E | GLY23 |
| site_id | BC6 |
| Number of Residues | 8 |
| Details | BINDING SITE FOR RESIDUE GOL E 304 |
| Chain | Residue |
| E | ASN130 |
| E | ALA204 |
| E | HOH409 |
| E | HOH419 |
| E | HOH421 |
| E | HOH422 |
| E | HOH475 |
| E | HOH548 |
| site_id | BC7 |
| Number of Residues | 8 |
| Details | BINDING SITE FOR RESIDUE GOL E 305 |
| Chain | Residue |
| A | ARG175 |
| B | PRO122 |
| B | GLU124 |
| E | ARG176 |
| E | GLU183 |
| E | HOH437 |
| E | HOH543 |
| E | HOH550 |
| site_id | BC8 |
| Number of Residues | 8 |
| Details | BINDING SITE FOR RESIDUE SO4 F 301 |
| Chain | Residue |
| E | ARG45 |
| F | GLY23 |
| F | ARG27 |
| F | ARG88 |
| F | VAL89 |
| F | GLY90 |
| F | THR91 |
| F | GOL305 |
| site_id | BC9 |
| Number of Residues | 5 |
| Details | BINDING SITE FOR RESIDUE CL F 302 |
| Chain | Residue |
| F | GLY93 |
| F | GLN163 |
| F | ARG165 |
| F | HOH413 |
| F | HOH452 |
| site_id | CC1 |
| Number of Residues | 7 |
| Details | BINDING SITE FOR RESIDUE GOL F 303 |
| Chain | Residue |
| C | PRO122 |
| C | GLU124 |
| D | ARG175 |
| F | LEU113 |
| F | ARG176 |
| F | GLU183 |
| F | HOH454 |
| site_id | CC2 |
| Number of Residues | 8 |
| Details | BINDING SITE FOR RESIDUE GOL F 304 |
| Chain | Residue |
| F | ASN130 |
| F | ALA204 |
| F | HOH410 |
| F | HOH411 |
| F | HOH429 |
| F | HOH437 |
| F | HOH457 |
| F | HOH527 |
| site_id | CC3 |
| Number of Residues | 11 |
| Details | BINDING SITE FOR RESIDUE GOL F 305 |
| Chain | Residue |
| E | ARG45 |
| E | HOH482 |
| F | ILE66 |
| F | ARG88 |
| F | THR91 |
| F | GLU193 |
| F | MET194 |
| F | GLU195 |
| F | SO4301 |
| F | HOH433 |
| F | HOH452 |
| site_id | CC4 |
| Number of Residues | 8 |
| Details | BINDING SITE FOR RESIDUE SO4 A 301 |
| Chain | Residue |
| A | GLY23 |
| A | ARG27 |
| A | ARG88 |
| A | VAL89 |
| A | GLY90 |
| A | THR91 |
| A | GOL303 |
| B | ARG45 |
| site_id | CC5 |
| Number of Residues | 4 |
| Details | BINDING SITE FOR RESIDUE CL A 302 |
| Chain | Residue |
| A | GLY93 |
| A | GLN163 |
| A | ARG165 |
| A | HOH456 |
| site_id | CC6 |
| Number of Residues | 11 |
| Details | BINDING SITE FOR RESIDUE GOL A 303 |
| Chain | Residue |
| A | ILE66 |
| A | ARG88 |
| A | THR91 |
| A | GLU193 |
| A | MET194 |
| A | GLU195 |
| A | SO4301 |
| A | HOH419 |
| A | HOH456 |
| B | ARG45 |
| B | HOH455 |
| site_id | CC7 |
| Number of Residues | 8 |
| Details | BINDING SITE FOR RESIDUE GOL A 304 |
| Chain | Residue |
| A | ASN130 |
| A | ALA204 |
| A | HOH421 |
| A | HOH427 |
| A | HOH433 |
| A | HOH443 |
| A | HOH501 |
| A | HOH550 |
| site_id | CC8 |
| Number of Residues | 8 |
| Details | BINDING SITE FOR RESIDUE GOL A 305 |
| Chain | Residue |
| A | ARG176 |
| A | GLU183 |
| A | HOH471 |
| A | HOH525 |
| A | HOH584 |
| C | ARG175 |
| D | PRO122 |
| D | GLU124 |
| site_id | CC9 |
| Number of Residues | 7 |
| Details | BINDING SITE FOR RESIDUE SO4 B 301 |
| Chain | Residue |
| B | ARG175 |
| B | HOH490 |
| B | HOH527 |
| B | HOH530 |
| B | HOH561 |
| D | ARG175 |
| F | ARG175 |
| site_id | DC1 |
| Number of Residues | 8 |
| Details | BINDING SITE FOR RESIDUE GOL B 302 |
| Chain | Residue |
| B | ASN130 |
| B | ALA204 |
| B | HOH408 |
| B | HOH409 |
| B | HOH416 |
| B | HOH453 |
| B | HOH469 |
| B | HOH548 |
| site_id | DC2 |
| Number of Residues | 9 |
| Details | BINDING SITE FOR RESIDUE GOL B 303 |
| Chain | Residue |
| B | ILE66 |
| B | ARG88 |
| B | GLU193 |
| B | MET194 |
| B | GLU195 |
| B | SO4304 |
| B | HOH441 |
| B | HOH518 |
| B | HOH532 |
| site_id | DC3 |
| Number of Residues | 9 |
| Details | BINDING SITE FOR RESIDUE SO4 B 304 |
| Chain | Residue |
| A | ARG45 |
| B | GLY23 |
| B | ARG27 |
| B | ARG88 |
| B | VAL89 |
| B | GLY90 |
| B | THR91 |
| B | GOL303 |
| B | HOH532 |
| site_id | DC4 |
| Number of Residues | 12 |
| Details | BINDING SITE FOR RESIDUE GOL B 305 |
| Chain | Residue |
| B | LEU113 |
| B | ARG176 |
| B | SER180 |
| B | GLU183 |
| B | TRP184 |
| B | HOH444 |
| B | HOH549 |
| B | HOH552 |
| B | HOH558 |
| E | PRO122 |
| E | GLU124 |
| F | ARG175 |
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 |
| C | SER63-LEU78 |
