6SQS
Crystal structure of cat phospho-Ser429 MDM2 RING domain bound to UbcH5B-Ub
Functional Information from GO Data
| Chain | GOid | namespace | contents |
| A | 0005634 | cellular_component | nucleus |
| A | 0042802 | molecular_function | identical protein binding |
| A | 0043066 | biological_process | negative regulation of apoptotic process |
| A | 0051726 | biological_process | regulation of cell cycle |
| A | 0061630 | molecular_function | ubiquitin protein ligase activity |
| B | 0000151 | cellular_component | ubiquitin ligase complex |
| B | 0000209 | biological_process | protein polyubiquitination |
| B | 0004842 | molecular_function | ubiquitin-protein transferase activity |
| B | 0005515 | molecular_function | protein binding |
| B | 0005524 | molecular_function | ATP binding |
| B | 0005634 | cellular_component | nucleus |
| B | 0005654 | cellular_component | nucleoplasm |
| B | 0005829 | cellular_component | cytosol |
| B | 0006511 | biological_process | ubiquitin-dependent protein catabolic process |
| B | 0016567 | biological_process | protein ubiquitination |
| B | 0016740 | molecular_function | transferase activity |
| B | 0019787 | molecular_function | ubiquitin-like protein transferase activity |
| B | 0031371 | cellular_component | ubiquitin conjugating enzyme complex |
| B | 0031625 | molecular_function | ubiquitin protein ligase binding |
| B | 0032991 | cellular_component | protein-containing complex |
| B | 0036211 | biological_process | protein modification process |
| B | 0051865 | biological_process | protein autoubiquitination |
| B | 0061630 | molecular_function | ubiquitin protein ligase activity |
| B | 0061631 | molecular_function | ubiquitin conjugating enzyme activity |
| B | 0070062 | cellular_component | extracellular exosome |
| B | 0070936 | biological_process | protein K48-linked ubiquitination |
| D | 0005634 | cellular_component | nucleus |
| D | 0042802 | molecular_function | identical protein binding |
| D | 0043066 | biological_process | negative regulation of apoptotic process |
| D | 0051726 | biological_process | regulation of cell cycle |
| D | 0061630 | molecular_function | ubiquitin protein ligase activity |
| E | 0000151 | cellular_component | ubiquitin ligase complex |
| E | 0000209 | biological_process | protein polyubiquitination |
| E | 0004842 | molecular_function | ubiquitin-protein transferase activity |
| E | 0005515 | molecular_function | protein binding |
| E | 0005524 | molecular_function | ATP binding |
| E | 0005634 | cellular_component | nucleus |
| E | 0005654 | cellular_component | nucleoplasm |
| E | 0005829 | cellular_component | cytosol |
| E | 0006511 | biological_process | ubiquitin-dependent protein catabolic process |
| E | 0016567 | biological_process | protein ubiquitination |
| E | 0016740 | molecular_function | transferase activity |
| E | 0019787 | molecular_function | ubiquitin-like protein transferase activity |
| E | 0031371 | cellular_component | ubiquitin conjugating enzyme complex |
| E | 0031625 | molecular_function | ubiquitin protein ligase binding |
| E | 0032991 | cellular_component | protein-containing complex |
| E | 0036211 | biological_process | protein modification process |
| E | 0051865 | biological_process | protein autoubiquitination |
| E | 0061630 | molecular_function | ubiquitin protein ligase activity |
| E | 0061631 | molecular_function | ubiquitin conjugating enzyme activity |
| E | 0070062 | cellular_component | extracellular exosome |
| E | 0070936 | biological_process | protein K48-linked ubiquitination |
Functional Information from PDB Data
| site_id | AC1 |
| Number of Residues | 4 |
| Details | binding site for residue ZN A 501 |
| Chain | Residue |
| A | CYS438 |
| A | CYS441 |
| A | CYS461 |
| A | CYS464 |
| site_id | AC2 |
| Number of Residues | 4 |
| Details | binding site for residue ZN A 502 |
| Chain | Residue |
| A | HIS452 |
| A | HIS457 |
| A | CYS475 |
| A | CYS478 |
| site_id | AC3 |
| Number of Residues | 4 |
| Details | binding site for residue ZN D 501 |
| Chain | Residue |
| D | CYS441 |
| D | CYS461 |
| D | CYS464 |
| D | CYS438 |
| site_id | AC4 |
| Number of Residues | 4 |
| Details | binding site for residue ZN D 502 |
| Chain | Residue |
| D | HIS452 |
| D | HIS457 |
| D | CYS475 |
| D | CYS478 |
Functional Information from PROSITE/UniProt
| site_id | PS00299 |
| Number of Residues | 26 |
| Details | UBIQUITIN_1 Ubiquitin domain signature. KakIqDkegIPpdqQrLIFaGkqleD |
| Chain | Residue | Details |
| C | LYS27-ASP52 |
Functional Information from SwissProt/UniProt
| site_id | SWS_FT_FI1 |
| Number of Residues | 4 |
| Details | SITE: Interacts with activating enzyme |
| Chain | Residue | Details |
| C | ARG54 | |
| C | ARG72 | |
| F | ARG54 | |
| F | ARG72 |
| site_id | SWS_FT_FI2 |
| Number of Residues | 2 |
| Details | SITE: Essential for function |
| Chain | Residue | Details |
| C | HIS68 | |
| F | HIS68 |
| site_id | SWS_FT_FI3 |
| Number of Residues | 2 |
| Details | MOD_RES: Phosphoserine; by PINK1 => ECO:0000269|PubMed:24660806, ECO:0000269|PubMed:24751536, ECO:0000269|PubMed:24784582, ECO:0000269|PubMed:25527291 |
| Chain | Residue | Details |
| C | SER65 | |
| F | SER65 |
| site_id | SWS_FT_FI4 |
| Number of Residues | 2 |
| Details | MOD_RES: (Microbial infection) ADP-ribosylthreonine => ECO:0000269|PubMed:32330457 |
| Chain | Residue | Details |
| C | THR66 | |
| F | THR66 |
| site_id | SWS_FT_FI5 |
| Number of Residues | 2 |
| Details | MOD_RES: ADP-ribosylglycine => ECO:0000269|PubMed:28525742 |
| Chain | Residue | Details |
| C | GLY76 | |
| F | GLY76 |
| site_id | SWS_FT_FI6 |
| Number of Residues | 2 |
| Details | CROSSLNK: Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin) => ECO:0000269|PubMed:16443603 |
| Chain | Residue | Details |
| C | LYS6 | |
| F | LYS6 |
| site_id | SWS_FT_FI7 |
| Number of Residues | 4 |
| Details | CROSSLNK: Glycyl lysine isopeptide (Gly-Lys) (interchain with K-? in acceptor proteins) |
| Chain | Residue | Details |
| C | GLY76 | |
| F | GLY76 |
| site_id | SWS_FT_FI8 |
| Number of Residues | 4 |
| Details | CROSSLNK: Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin) => ECO:0000269|PubMed:16443603, ECO:0000269|PubMed:16543144 |
| Chain | Residue | Details |
| C | LYS11 | |
| C | LYS48 | |
| F | LYS11 | |
| F | LYS48 |
| site_id | SWS_FT_FI9 |
| Number of Residues | 2 |
| Details | CROSSLNK: Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin) => ECO:0000305|PubMed:15466860 |
| Chain | Residue | Details |
| C | LYS27 | |
| F | LYS27 |
| site_id | SWS_FT_FI10 |
| Number of Residues | 2 |
| Details | CROSSLNK: Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin) => ECO:0000269|PubMed:16543144, ECO:0000269|PubMed:25752573, ECO:0000269|PubMed:25752577, ECO:0000269|PubMed:34239127 |
| Chain | Residue | Details |
| C | LYS29 | |
| F | LYS29 |
| site_id | SWS_FT_FI11 |
| Number of Residues | 2 |
| Details | CROSSLNK: Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin) => ECO:0000269|PubMed:25752577 |
| Chain | Residue | Details |
| C | LYS33 | |
| F | LYS33 |
| site_id | SWS_FT_FI12 |
| Number of Residues | 2 |
| Details | CROSSLNK: Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin) => ECO:0000269|PubMed:16543144, ECO:0000269|PubMed:18719106 |
| Chain | Residue | Details |
| C | LYS63 | |
| F | LYS63 |
