4F56
The bicyclic intermediate structure provides insights into the desuccinylation mechanism of SIRT5
Functional Information from GO Data
| Chain | GOid | namespace | contents |
| A | 0036054 | molecular_function | protein-malonyllysine demalonylase activity |
| A | 0036055 | molecular_function | protein-succinyllysine desuccinylase activity |
| A | 0070403 | molecular_function | NAD+ binding |
| B | 0036054 | molecular_function | protein-malonyllysine demalonylase activity |
| B | 0036055 | molecular_function | protein-succinyllysine desuccinylase activity |
| B | 0070403 | molecular_function | NAD+ binding |
Functional Information from PDB Data
| site_id | AC1 |
| Number of Residues | 4 |
| Details | BINDING SITE FOR RESIDUE ZN A 401 |
| Chain | Residue |
| A | CYS166 |
| A | CYS169 |
| A | CYS207 |
| A | CYS212 |
| site_id | AC2 |
| Number of Residues | 4 |
| Details | BINDING SITE FOR RESIDUE ZN B 401 |
| Chain | Residue |
| B | CYS166 |
| B | CYS169 |
| B | CYS207 |
| B | CYS212 |
| site_id | AC3 |
| Number of Residues | 30 |
| Details | BINDING SITE FOR RESIDUE CGK C 101 |
| Chain | Residue |
| A | ALA59 |
| A | GLY60 |
| A | ALA63 |
| A | GLU64 |
| A | THR69 |
| A | PHE70 |
| A | ARG71 |
| A | TYR102 |
| A | ARG105 |
| A | GLN140 |
| A | ILE142 |
| A | HIS158 |
| A | VAL220 |
| A | PHE223 |
| A | GLY249 |
| A | THR250 |
| A | SER251 |
| A | VAL254 |
| A | ASN275 |
| A | THR276 |
| A | GLU277 |
| A | PRO292 |
| A | CYS293 |
| A | HOH511 |
| A | HOH697 |
| C | LYS9 |
| C | HOH201 |
| C | HOH202 |
| C | HOH203 |
| A | GLY58 |
| site_id | AC4 |
| Number of Residues | 32 |
| Details | BINDING SITE FOR RESIDUE CGK D 101 |
| Chain | Residue |
| B | GLY58 |
| B | ALA59 |
| B | GLY60 |
| B | ALA63 |
| B | GLU64 |
| B | THR69 |
| B | PHE70 |
| B | ARG71 |
| B | TYR102 |
| B | ARG105 |
| B | GLN140 |
| B | ILE142 |
| B | HIS158 |
| B | VAL220 |
| B | PHE223 |
| B | GLY249 |
| B | THR250 |
| B | SER251 |
| B | VAL254 |
| B | ASN275 |
| B | THR276 |
| B | GLU277 |
| B | PRO292 |
| B | CYS293 |
| B | HOH596 |
| B | HOH698 |
| D | LYS9 |
| D | HOH201 |
| D | HOH202 |
| D | HOH203 |
| D | HOH205 |
| D | HOH206 |
Functional Information from SwissProt/UniProt
| site_id | SWS_FT_FI1 |
| Number of Residues | 2 |
| Details | MOD_RES: N6-methyllysine; alternate => ECO:0000269|PubMed:16267050, ECO:0000269|PubMed:16457588, ECO:0000269|PubMed:17194708 |
| Chain | Residue | Details |
| C | LYS4 | |
| D | LYS4 |
| site_id | SWS_FT_FI2 |
| Number of Residues | 2 |
| Details | MOD_RES: 5-glutamyl serotonin; alternate => ECO:0000269|PubMed:30867594 |
| Chain | Residue | Details |
| C | GLN5 | |
| B | CYS293 | |
| D | GLN5 | |
| A | GLY249 | |
| A | ASN275 | |
| A | CYS293 | |
| B | GLY58 | |
| B | GLN140 | |
| B | GLY249 | |
| B | ASN275 |
| site_id | SWS_FT_FI3 |
| Number of Residues | 2 |
| Details | MOD_RES: Phosphothreonine; by PKC => ECO:0000269|PubMed:20228790 |
| Chain | Residue | Details |
| C | THR6 | |
| B | CYS169 | |
| B | CYS207 | |
| B | CYS212 | |
| D | THR6 | |
| A | CYS166 | |
| A | CYS169 | |
| A | CYS207 | |
| A | CYS212 | |
| B | TYR102 | |
| B | ARG105 | |
| B | CYS166 |
| site_id | SWS_FT_FI4 |
| Number of Residues | 2 |
| Details | MOD_RES: Symmetric dimethylarginine; by PRMT5; alternate => ECO:0000250|UniProtKB:P68433 |
| Chain | Residue | Details |
| C | ARG8 | |
| D | ARG8 |
| site_id | SWS_FT_FI5 |
| Number of Residues | 2 |
| Details | MOD_RES: N6-methyllysine; alternate => ECO:0000269|PubMed:11242053, ECO:0000269|PubMed:16185088, ECO:0000269|PubMed:16267050, ECO:0000269|PubMed:16457588, ECO:0000269|PubMed:17194708 |
| Chain | Residue | Details |
| C | LYS9 | |
| D | LYS9 |
| site_id | SWS_FT_FI6 |
| Number of Residues | 2 |
| Details | MOD_RES: Phosphoserine; alternate; by AURKB, AURKC, RPS6KA3, RPS6KA4 and RPS6KA5 => ECO:0000269|PubMed:10464286, ECO:0000269|PubMed:11856369, ECO:0000269|PubMed:12560483, ECO:0000269|PubMed:15681610, ECO:0000269|PubMed:16185088, ECO:0000269|PubMed:16457588 |
| Chain | Residue | Details |
| C | SER10 | |
| D | SER10 |
| site_id | SWS_FT_FI7 |
| Number of Residues | 2 |
| Details | MOD_RES: Phosphothreonine; by PKC and CHEK1 => ECO:0000269|PubMed:12560483, ECO:0000269|PubMed:18066052, ECO:0000269|PubMed:18243098, ECO:0000269|PubMed:22901803 |
| Chain | Residue | Details |
| C | THR11 | |
| D | THR11 |
| site_id | SWS_FT_FI8 |
| Number of Residues | 2 |
| Details | MOD_RES: N6-succinyllysine; alternate => ECO:0000269|PubMed:22389435 |
| Chain | Residue | Details |
| C | LYS14 | |
| D | LYS14 |
