4O8R
Crystal structure of orotidine 5'-monophosphate decarboxylase from methanobacterium thermoautotrophicum complexed with 5,6-dihydrouridine 5'-monophosphate
Functional Information from GO Data
| Chain | GOid | namespace | contents |
| A | 0004590 | molecular_function | orotidine-5'-phosphate decarboxylase activity |
| A | 0005829 | cellular_component | cytosol |
| A | 0006207 | biological_process | 'de novo' pyrimidine nucleobase biosynthetic process |
| A | 0006221 | biological_process | pyrimidine nucleotide biosynthetic process |
| A | 0016831 | molecular_function | carboxy-lyase activity |
| A | 0044205 | biological_process | 'de novo' UMP biosynthetic process |
| B | 0004590 | molecular_function | orotidine-5'-phosphate decarboxylase activity |
| B | 0005829 | cellular_component | cytosol |
| B | 0006207 | biological_process | 'de novo' pyrimidine nucleobase biosynthetic process |
| B | 0006221 | biological_process | pyrimidine nucleotide biosynthetic process |
| B | 0016831 | molecular_function | carboxy-lyase activity |
| B | 0044205 | biological_process | 'de novo' UMP biosynthetic process |
| C | 0004590 | molecular_function | orotidine-5'-phosphate decarboxylase activity |
| C | 0005829 | cellular_component | cytosol |
| C | 0006207 | biological_process | 'de novo' pyrimidine nucleobase biosynthetic process |
| C | 0006221 | biological_process | pyrimidine nucleotide biosynthetic process |
| C | 0016831 | molecular_function | carboxy-lyase activity |
| C | 0044205 | biological_process | 'de novo' UMP biosynthetic process |
| D | 0004590 | molecular_function | orotidine-5'-phosphate decarboxylase activity |
| D | 0005829 | cellular_component | cytosol |
| D | 0006207 | biological_process | 'de novo' pyrimidine nucleobase biosynthetic process |
| D | 0006221 | biological_process | pyrimidine nucleotide biosynthetic process |
| D | 0016831 | molecular_function | carboxy-lyase activity |
| D | 0044205 | biological_process | 'de novo' UMP biosynthetic process |
| E | 0004590 | molecular_function | orotidine-5'-phosphate decarboxylase activity |
| E | 0005829 | cellular_component | cytosol |
| E | 0006207 | biological_process | 'de novo' pyrimidine nucleobase biosynthetic process |
| E | 0006221 | biological_process | pyrimidine nucleotide biosynthetic process |
| E | 0016831 | molecular_function | carboxy-lyase activity |
| E | 0044205 | biological_process | 'de novo' UMP biosynthetic process |
| F | 0004590 | molecular_function | orotidine-5'-phosphate decarboxylase activity |
| F | 0005829 | cellular_component | cytosol |
| F | 0006207 | biological_process | 'de novo' pyrimidine nucleobase biosynthetic process |
| F | 0006221 | biological_process | pyrimidine nucleotide biosynthetic process |
| F | 0016831 | molecular_function | carboxy-lyase activity |
| F | 0044205 | biological_process | 'de novo' UMP biosynthetic process |
| G | 0004590 | molecular_function | orotidine-5'-phosphate decarboxylase activity |
| G | 0005829 | cellular_component | cytosol |
| G | 0006207 | biological_process | 'de novo' pyrimidine nucleobase biosynthetic process |
| G | 0006221 | biological_process | pyrimidine nucleotide biosynthetic process |
| G | 0016831 | molecular_function | carboxy-lyase activity |
| G | 0044205 | biological_process | 'de novo' UMP biosynthetic process |
| H | 0004590 | molecular_function | orotidine-5'-phosphate decarboxylase activity |
| H | 0005829 | cellular_component | cytosol |
| H | 0006207 | biological_process | 'de novo' pyrimidine nucleobase biosynthetic process |
| H | 0006221 | biological_process | pyrimidine nucleotide biosynthetic process |
| H | 0016831 | molecular_function | carboxy-lyase activity |
| H | 0044205 | biological_process | 'de novo' UMP biosynthetic process |
| I | 0004590 | molecular_function | orotidine-5'-phosphate decarboxylase activity |
| I | 0005829 | cellular_component | cytosol |
| I | 0006207 | biological_process | 'de novo' pyrimidine nucleobase biosynthetic process |
| I | 0006221 | biological_process | pyrimidine nucleotide biosynthetic process |
| I | 0016831 | molecular_function | carboxy-lyase activity |
| I | 0044205 | biological_process | 'de novo' UMP biosynthetic process |
| J | 0004590 | molecular_function | orotidine-5'-phosphate decarboxylase activity |
| J | 0005829 | cellular_component | cytosol |
| J | 0006207 | biological_process | 'de novo' pyrimidine nucleobase biosynthetic process |
| J | 0006221 | biological_process | pyrimidine nucleotide biosynthetic process |
| J | 0016831 | molecular_function | carboxy-lyase activity |
| J | 0044205 | biological_process | 'de novo' UMP biosynthetic process |
| K | 0004590 | molecular_function | orotidine-5'-phosphate decarboxylase activity |
| K | 0005829 | cellular_component | cytosol |
| K | 0006207 | biological_process | 'de novo' pyrimidine nucleobase biosynthetic process |
| K | 0006221 | biological_process | pyrimidine nucleotide biosynthetic process |
| K | 0016831 | molecular_function | carboxy-lyase activity |
| K | 0044205 | biological_process | 'de novo' UMP biosynthetic process |
| L | 0004590 | molecular_function | orotidine-5'-phosphate decarboxylase activity |
| L | 0005829 | cellular_component | cytosol |
| L | 0006207 | biological_process | 'de novo' pyrimidine nucleobase biosynthetic process |
| L | 0006221 | biological_process | pyrimidine nucleotide biosynthetic process |
| L | 0016831 | molecular_function | carboxy-lyase activity |
| L | 0044205 | biological_process | 'de novo' UMP biosynthetic process |
| M | 0004590 | molecular_function | orotidine-5'-phosphate decarboxylase activity |
| M | 0005829 | cellular_component | cytosol |
| M | 0006207 | biological_process | 'de novo' pyrimidine nucleobase biosynthetic process |
| M | 0006221 | biological_process | pyrimidine nucleotide biosynthetic process |
| M | 0016831 | molecular_function | carboxy-lyase activity |
| M | 0044205 | biological_process | 'de novo' UMP biosynthetic process |
Functional Information from PDB Data
| site_id | AC1 |
| Number of Residues | 17 |
| Details | BINDING SITE FOR RESIDUE H2U A 301 |
| Chain | Residue |
| A | ASP20 |
| A | ARG203 |
| A | HOH404 |
| A | HOH405 |
| A | HOH408 |
| A | HOH420 |
| B | ASP75 |
| B | ILE76 |
| B | THR79 |
| A | LYS42 |
| A | ASP70 |
| A | MET126 |
| A | SER127 |
| A | PRO180 |
| A | VAL182 |
| A | GLN185 |
| A | GLY202 |
| site_id | AC2 |
| Number of Residues | 4 |
| Details | BINDING SITE FOR RESIDUE CL A 302 |
| Chain | Residue |
| A | TYR37 |
| A | TYR37 |
| A | ALA212 |
| A | ALA212 |
| site_id | AC3 |
| Number of Residues | 18 |
| Details | BINDING SITE FOR RESIDUE H2U B 301 |
| Chain | Residue |
| A | ASP75 |
| A | ILE76 |
| A | THR79 |
| B | ASP20 |
| B | LYS42 |
| B | ASP70 |
| B | LYS72 |
| B | MET126 |
| B | SER127 |
| B | PRO180 |
| B | GLN185 |
| B | GLY202 |
| B | ARG203 |
| B | HOH407 |
| B | HOH411 |
| B | HOH414 |
| B | HOH416 |
| B | HOH421 |
| site_id | AC4 |
| Number of Residues | 19 |
| Details | BINDING SITE FOR RESIDUE H2U C 301 |
| Chain | Residue |
| C | ASP20 |
| C | LYS42 |
| C | ASP70 |
| C | LYS72 |
| C | MET126 |
| C | SER127 |
| C | PRO180 |
| C | GLN185 |
| C | VAL201 |
| C | GLY202 |
| C | ARG203 |
| C | HOH407 |
| C | HOH411 |
| C | HOH423 |
| C | HOH433 |
| C | HOH434 |
| D | ASP75 |
| D | ILE76 |
| D | THR79 |
| site_id | AC5 |
| Number of Residues | 17 |
| Details | BINDING SITE FOR RESIDUE H2U D 301 |
| Chain | Residue |
| C | ASP75 |
| C | ILE76 |
| C | THR79 |
| D | ASP20 |
| D | LYS42 |
| D | ASP70 |
| D | LYS72 |
| D | MET126 |
| D | SER127 |
| D | PRO180 |
| D | GLN185 |
| D | GLY202 |
| D | ARG203 |
| D | HOH409 |
| D | HOH411 |
| D | HOH412 |
| D | HOH418 |
| site_id | AC6 |
| Number of Residues | 17 |
| Details | BINDING SITE FOR RESIDUE H2U E 301 |
| Chain | Residue |
| E | ASP20 |
| E | LYS42 |
| E | ASP70 |
| E | LYS72 |
| E | MET126 |
| E | SER127 |
| E | PRO180 |
| E | GLN185 |
| E | GLY202 |
| E | ARG203 |
| E | HOH404 |
| E | HOH405 |
| E | HOH406 |
| E | HOH407 |
| F | ASP75 |
| F | ILE76 |
| F | THR79 |
| site_id | AC7 |
| Number of Residues | 14 |
| Details | BINDING SITE FOR RESIDUE H2U F 301 |
| Chain | Residue |
| F | SER127 |
| F | PRO180 |
| F | GLN185 |
| F | GLY202 |
| F | ARG203 |
| F | HOH409 |
| F | HOH410 |
| E | ASP75 |
| E | ILE76 |
| E | THR79 |
| F | ASP20 |
| F | LYS42 |
| F | ASP70 |
| F | MET126 |
| site_id | AC8 |
| Number of Residues | 16 |
| Details | BINDING SITE FOR RESIDUE H2U G 301 |
| Chain | Residue |
| G | ASP20 |
| G | LYS42 |
| G | ASP70 |
| G | LYS72 |
| G | MET126 |
| G | SER127 |
| G | PRO180 |
| G | GLN185 |
| G | GLY202 |
| G | ARG203 |
| G | HOH403 |
| G | HOH404 |
| G | HOH405 |
| H | ASP75 |
| H | ILE76 |
| H | THR79 |
| site_id | AC9 |
| Number of Residues | 17 |
| Details | BINDING SITE FOR RESIDUE H2U H 301 |
| Chain | Residue |
| G | ASP75 |
| G | ILE76 |
| G | THR79 |
| H | ASP20 |
| H | LYS42 |
| H | ASP70 |
| H | LYS72 |
| H | MET126 |
| H | SER127 |
| H | PRO180 |
| H | VAL182 |
| H | GLN185 |
| H | GLY202 |
| H | ARG203 |
| H | HOH403 |
| H | HOH404 |
| H | HOH405 |
| site_id | BC1 |
| Number of Residues | 16 |
| Details | BINDING SITE FOR RESIDUE H2U J 301 |
| Chain | Residue |
| I | ASP75 |
| I | ILE76 |
| I | THR79 |
| J | ASP20 |
| J | LYS42 |
| J | ASP70 |
| J | LYS72 |
| J | MET126 |
| J | SER127 |
| J | PRO180 |
| J | ALA184 |
| J | GLN185 |
| J | GLY202 |
| J | ARG203 |
| J | HOH419 |
| J | HOH420 |
| site_id | BC2 |
| Number of Residues | 15 |
| Details | BINDING SITE FOR RESIDUE H2U K 301 |
| Chain | Residue |
| K | ASP20 |
| K | LYS42 |
| K | ASP70 |
| K | MET126 |
| K | SER127 |
| K | PRO180 |
| K | VAL182 |
| K | GLN185 |
| K | GLY202 |
| K | ARG203 |
| K | HOH402 |
| K | HOH403 |
| L | ASP75 |
| L | ILE76 |
| L | THR79 |
| site_id | BC3 |
| Number of Residues | 15 |
| Details | BINDING SITE FOR RESIDUE H2U L 301 |
| Chain | Residue |
| K | ASP75 |
| K | ILE76 |
| K | THR79 |
| L | ASP20 |
| L | LYS42 |
| L | ASP70 |
| L | LYS72 |
| L | MET126 |
| L | SER127 |
| L | PRO180 |
| L | VAL182 |
| L | GLN185 |
| L | VAL201 |
| L | GLY202 |
| L | ARG203 |
| site_id | BC4 |
| Number of Residues | 17 |
| Details | BINDING SITE FOR RESIDUE H2U M 301 |
| Chain | Residue |
| M | ASP20 |
| M | LYS42 |
| M | ASP70 |
| M | LYS72 |
| M | ASP75 |
| M | ILE76 |
| M | THR79 |
| M | MET126 |
| M | SER127 |
| M | PRO180 |
| M | GLN185 |
| M | GLY202 |
| M | ARG203 |
| M | TYR206 |
| M | HOH418 |
| M | HOH421 |
| M | HOH422 |
Functional Information from PROSITE/UniProt
| site_id | PS00156 |
| Number of Residues | 14 |
| Details | OMPDECASE Orotidine 5'-phosphate decarboxylase active site. IIaDfKvaDIPeTN |
| Chain | Residue | Details |
| A | ILE67-ASN80 |
Functional Information from SwissProt/UniProt
| site_id | SWS_FT_FI1 |
| Number of Residues | 13 |
| Details | ACT_SITE: Proton donor |
| Chain | Residue | Details |
| A | LYS72 | |
| J | LYS72 | |
| K | LYS72 | |
| L | LYS72 | |
| M | LYS72 | |
| B | LYS72 | |
| C | LYS72 | |
| D | LYS72 | |
| E | LYS72 | |
| F | LYS72 | |
| G | LYS72 | |
| H | LYS72 | |
| I | LYS72 |
| site_id | SWS_FT_FI2 |
| Number of Residues | 91 |
| Details | BINDING: |
| Chain | Residue | Details |
| A | ASP20 | |
| B | ASP70 | |
| B | SER127 | |
| B | PRO180 | |
| B | GLY202 | |
| B | ARG203 | |
| C | ASP20 | |
| C | LYS42 | |
| C | ASP70 | |
| C | SER127 | |
| C | PRO180 | |
| A | LYS42 | |
| C | GLY202 | |
| C | ARG203 | |
| D | ASP20 | |
| D | LYS42 | |
| D | ASP70 | |
| D | SER127 | |
| D | PRO180 | |
| D | GLY202 | |
| D | ARG203 | |
| E | ASP20 | |
| A | ASP70 | |
| E | LYS42 | |
| E | ASP70 | |
| E | SER127 | |
| E | PRO180 | |
| E | GLY202 | |
| E | ARG203 | |
| F | ASP20 | |
| F | LYS42 | |
| F | ASP70 | |
| F | SER127 | |
| A | SER127 | |
| F | PRO180 | |
| F | GLY202 | |
| F | ARG203 | |
| G | ASP20 | |
| G | LYS42 | |
| G | ASP70 | |
| G | SER127 | |
| G | PRO180 | |
| G | GLY202 | |
| G | ARG203 | |
| A | PRO180 | |
| H | ASP20 | |
| H | LYS42 | |
| H | ASP70 | |
| H | SER127 | |
| H | PRO180 | |
| H | GLY202 | |
| H | ARG203 | |
| I | ASP20 | |
| I | LYS42 | |
| I | ASP70 | |
| A | GLY202 | |
| I | SER127 | |
| I | PRO180 | |
| I | GLY202 | |
| I | ARG203 | |
| J | ASP20 | |
| J | LYS42 | |
| J | ASP70 | |
| J | SER127 | |
| J | PRO180 | |
| J | GLY202 | |
| A | ARG203 | |
| J | ARG203 | |
| K | ASP20 | |
| K | LYS42 | |
| K | ASP70 | |
| K | SER127 | |
| K | PRO180 | |
| K | GLY202 | |
| K | ARG203 | |
| L | ASP20 | |
| L | LYS42 | |
| B | ASP20 | |
| L | ASP70 | |
| L | SER127 | |
| L | PRO180 | |
| L | GLY202 | |
| L | ARG203 | |
| M | ASP20 | |
| M | LYS42 | |
| M | ASP70 | |
| M | SER127 | |
| M | PRO180 | |
| B | LYS42 | |
| M | GLY202 | |
| M | ARG203 |
