3GDT
Crystal structure of the D91N mutant of the orotidine 5'-monophosphate decarboxylase from Saccharomyces cerevisiae complexed with 6-azauridine 5'-monophosphate
Functional Information from GO Data
| Chain | GOid | namespace | contents |
| A | 0004590 | molecular_function | orotidine-5'-phosphate decarboxylase activity |
| A | 0005515 | molecular_function | protein binding |
| A | 0005829 | cellular_component | cytosol |
| A | 0006207 | biological_process | 'de novo' pyrimidine nucleobase biosynthetic process |
| A | 0006221 | biological_process | pyrimidine nucleotide biosynthetic process |
| A | 0006222 | biological_process | UMP biosynthetic process |
| A | 0016829 | molecular_function | lyase activity |
| 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 | 0005515 | molecular_function | protein binding |
| B | 0005829 | cellular_component | cytosol |
| B | 0006207 | biological_process | 'de novo' pyrimidine nucleobase biosynthetic process |
| B | 0006221 | biological_process | pyrimidine nucleotide biosynthetic process |
| B | 0006222 | biological_process | UMP biosynthetic process |
| B | 0016829 | molecular_function | lyase activity |
| 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 | 0005515 | molecular_function | protein binding |
| C | 0005829 | cellular_component | cytosol |
| C | 0006207 | biological_process | 'de novo' pyrimidine nucleobase biosynthetic process |
| C | 0006221 | biological_process | pyrimidine nucleotide biosynthetic process |
| C | 0006222 | biological_process | UMP biosynthetic process |
| C | 0016829 | molecular_function | lyase activity |
| 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 | 0005515 | molecular_function | protein binding |
| D | 0005829 | cellular_component | cytosol |
| D | 0006207 | biological_process | 'de novo' pyrimidine nucleobase biosynthetic process |
| D | 0006221 | biological_process | pyrimidine nucleotide biosynthetic process |
| D | 0006222 | biological_process | UMP biosynthetic process |
| D | 0016829 | molecular_function | lyase activity |
| D | 0016831 | molecular_function | carboxy-lyase activity |
| D | 0044205 | biological_process | 'de novo' UMP biosynthetic process |
Functional Information from PDB Data
| site_id | AC1 |
| Number of Residues | 21 |
| Details | BINDING SITE FOR RESIDUE UP6 A 301 |
| Chain | Residue |
| A | LYS59 |
| A | ARG235 |
| A | HOH278 |
| A | HOH313 |
| A | HOH335 |
| A | HOH347 |
| A | HOH351 |
| A | HOH353 |
| A | HOH370 |
| A | HOH482 |
| A | HOH490 |
| A | HIS61 |
| A | HOH492 |
| A | HOH493 |
| A | ASN91 |
| A | LYS93 |
| A | SER154 |
| A | PRO202 |
| A | GLY203 |
| A | TYR217 |
| A | GLY234 |
| site_id | AC2 |
| Number of Residues | 22 |
| Details | BINDING SITE FOR RESIDUE UP6 B 301 |
| Chain | Residue |
| B | LYS59 |
| B | HIS61 |
| B | ASN91 |
| B | LYS93 |
| B | SER154 |
| B | GLY203 |
| B | TYR217 |
| B | GLY234 |
| B | ARG235 |
| B | HOH270 |
| B | HOH276 |
| B | HOH298 |
| B | HOH316 |
| B | HOH323 |
| B | HOH329 |
| B | HOH500 |
| B | HOH502 |
| B | HOH506 |
| B | HOH510 |
| B | HOH525 |
| C | HOH324 |
| C | HOH499 |
| site_id | AC3 |
| Number of Residues | 17 |
| Details | BINDING SITE FOR RESIDUE UP6 C 301 |
| Chain | Residue |
| B | HOH362 |
| B | HOH518 |
| C | LYS59 |
| C | HIS61 |
| C | ASN91 |
| C | LYS93 |
| C | SER154 |
| C | PRO202 |
| C | GLY203 |
| C | GLY234 |
| C | HOH319 |
| C | HOH424 |
| C | HOH464 |
| C | HOH513 |
| C | HOH514 |
| C | HOH515 |
| C | HOH516 |
| site_id | AC4 |
| Number of Residues | 18 |
| Details | BINDING SITE FOR RESIDUE UP6 D 301 |
| Chain | Residue |
| D | LYS59 |
| D | HIS61 |
| D | ASN91 |
| D | LYS93 |
| D | SER154 |
| D | PRO202 |
| D | GLY203 |
| D | GLY234 |
| D | ARG235 |
| D | HOH279 |
| D | HOH341 |
| D | HOH391 |
| D | HOH472 |
| D | HOH474 |
| D | HOH475 |
| D | HOH476 |
| D | HOH477 |
| D | HOH479 |
Functional Information from SwissProt/UniProt
| site_id | SWS_FT_FI1 |
| Number of Residues | 4 |
| Details | Active site: {"description":"Proton donor"} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI2 |
| Number of Residues | 54 |
| Details | Binding site: {} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI3 |
| Number of Residues | 14 |
| Details | Cross-link: {"description":"Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin)","evidences":[{"source":"PubMed","id":"12872131","evidenceCode":"ECO:0000269"}]} |
| Chain | Residue | Details |
Catalytic Information from CSA
| site_id | CSA1 |
| Number of Residues | 2 |
| Details | Annotated By Reference To The Literature 1dbt |
| Chain | Residue | Details |
| A | ASN91 | |
| A | LYS93 |
| site_id | CSA2 |
| Number of Residues | 2 |
| Details | Annotated By Reference To The Literature 1dbt |
| Chain | Residue | Details |
| B | ASN91 | |
| B | LYS93 |
| site_id | CSA3 |
| Number of Residues | 2 |
| Details | Annotated By Reference To The Literature 1dbt |
| Chain | Residue | Details |
| C | ASN91 | |
| C | LYS93 |
| site_id | CSA4 |
| Number of Residues | 2 |
| Details | Annotated By Reference To The Literature 1dbt |
| Chain | Residue | Details |
| D | ASN91 | |
| D | LYS93 |
| site_id | CSA5 |
| Number of Residues | 4 |
| Details | Annotated By Reference To The Literature 1dbt |
| Chain | Residue | Details |
| A | LYS59 | |
| A | ASP96 | |
| A | ASN91 | |
| A | LYS93 |
| site_id | CSA6 |
| Number of Residues | 4 |
| Details | Annotated By Reference To The Literature 1dbt |
| Chain | Residue | Details |
| B | LYS59 | |
| B | ASP96 | |
| B | ASN91 | |
| B | LYS93 |
| site_id | CSA7 |
| Number of Residues | 4 |
| Details | Annotated By Reference To The Literature 1dbt |
| Chain | Residue | Details |
| C | LYS59 | |
| C | ASP96 | |
| C | ASN91 | |
| C | LYS93 |
| site_id | CSA8 |
| Number of Residues | 4 |
| Details | Annotated By Reference To The Literature 1dbt |
| Chain | Residue | Details |
| D | LYS59 | |
| D | ASP96 | |
| D | ASN91 | |
| D | LYS93 |
