6W9D
RNF12 RING domain in complex with a Ube2d2~Ub conjugate
Functional Information from GO Data
| Chain | GOid | namespace | contents |
| A | 0000209 | biological_process | protein polyubiquitination |
| A | 0004842 | molecular_function | ubiquitin-protein transferase activity |
| A | 0005515 | molecular_function | protein binding |
| A | 0005524 | molecular_function | ATP binding |
| A | 0005634 | cellular_component | nucleus |
| A | 0005654 | cellular_component | nucleoplasm |
| A | 0005829 | cellular_component | cytosol |
| A | 0006511 | biological_process | ubiquitin-dependent protein catabolic process |
| A | 0016567 | biological_process | protein ubiquitination |
| A | 0016740 | molecular_function | transferase activity |
| A | 0019787 | molecular_function | ubiquitin-like protein transferase activity |
| A | 0032991 | cellular_component | protein-containing complex |
| A | 0036211 | biological_process | protein modification process |
| A | 0051865 | biological_process | protein autoubiquitination |
| A | 0061630 | molecular_function | ubiquitin protein ligase activity |
| A | 0061631 | molecular_function | ubiquitin conjugating enzyme activity |
| A | 0070062 | cellular_component | extracellular exosome |
| A | 0070936 | biological_process | protein K48-linked ubiquitination |
| D | 0000209 | biological_process | protein polyubiquitination |
| D | 0004842 | molecular_function | ubiquitin-protein transferase activity |
| D | 0005515 | molecular_function | protein binding |
| D | 0005524 | molecular_function | ATP binding |
| D | 0005634 | cellular_component | nucleus |
| D | 0005654 | cellular_component | nucleoplasm |
| D | 0005829 | cellular_component | cytosol |
| D | 0006511 | biological_process | ubiquitin-dependent protein catabolic process |
| D | 0016567 | biological_process | protein ubiquitination |
| D | 0016740 | molecular_function | transferase activity |
| D | 0019787 | molecular_function | ubiquitin-like protein transferase activity |
| D | 0032991 | cellular_component | protein-containing complex |
| D | 0036211 | biological_process | protein modification process |
| D | 0051865 | biological_process | protein autoubiquitination |
| D | 0061630 | molecular_function | ubiquitin protein ligase activity |
| D | 0061631 | molecular_function | ubiquitin conjugating enzyme activity |
| D | 0070062 | cellular_component | extracellular exosome |
| D | 0070936 | biological_process | protein K48-linked ubiquitination |
| G | 0000209 | biological_process | protein polyubiquitination |
| G | 0004842 | molecular_function | ubiquitin-protein transferase activity |
| G | 0005515 | molecular_function | protein binding |
| G | 0005524 | molecular_function | ATP binding |
| G | 0005634 | cellular_component | nucleus |
| G | 0005654 | cellular_component | nucleoplasm |
| G | 0005829 | cellular_component | cytosol |
| G | 0006511 | biological_process | ubiquitin-dependent protein catabolic process |
| G | 0016567 | biological_process | protein ubiquitination |
| G | 0016740 | molecular_function | transferase activity |
| G | 0019787 | molecular_function | ubiquitin-like protein transferase activity |
| G | 0032991 | cellular_component | protein-containing complex |
| G | 0036211 | biological_process | protein modification process |
| G | 0051865 | biological_process | protein autoubiquitination |
| G | 0061630 | molecular_function | ubiquitin protein ligase activity |
| G | 0061631 | molecular_function | ubiquitin conjugating enzyme activity |
| G | 0070062 | cellular_component | extracellular exosome |
| G | 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 B 701 |
| Chain | Residue |
| B | CYS570 |
| B | CYS573 |
| B | HIS593 |
| B | CYS596 |
| site_id | AC2 |
| Number of Residues | 4 |
| Details | binding site for residue ZN B 702 |
| Chain | Residue |
| B | CYS588 |
| B | HIS590 |
| B | CYS607 |
| B | CYS610 |
| site_id | AC3 |
| Number of Residues | 4 |
| Details | binding site for residue ZN E 701 |
| Chain | Residue |
| E | CYS573 |
| E | HIS593 |
| E | CYS596 |
| E | CYS570 |
| site_id | AC4 |
| Number of Residues | 4 |
| Details | binding site for residue ZN E 702 |
| Chain | Residue |
| E | CYS588 |
| E | HIS590 |
| E | CYS607 |
| E | CYS610 |
| site_id | AC5 |
| Number of Residues | 2 |
| Details | binding site for residue IOD G 201 |
| Chain | Residue |
| G | LYS4 |
| G | LEU148 |
| site_id | AC6 |
| Number of Residues | 5 |
| Details | binding site for residue ZN H 701 |
| Chain | Residue |
| G | ARG72 |
| H | CYS570 |
| H | CYS573 |
| H | HIS593 |
| H | CYS596 |
| site_id | AC7 |
| Number of Residues | 4 |
| Details | binding site for residue ZN H 702 |
| Chain | Residue |
| H | CYS588 |
| H | HIS590 |
| H | CYS607 |
| H | CYS610 |
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 | 6 |
| Details | SITE: Interacts with activating enzyme |
| Chain | Residue | Details |
| C | ARG54 | |
| C | ARG72 | |
| F | ARG54 | |
| F | ARG72 | |
| I | ARG54 | |
| I | ARG72 |
| site_id | SWS_FT_FI2 |
| Number of Residues | 3 |
| Details | SITE: Essential for function |
| Chain | Residue | Details |
| C | HIS68 | |
| F | HIS68 | |
| I | HIS68 |
| site_id | SWS_FT_FI3 |
| Number of Residues | 3 |
| 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 | |
| I | SER65 |
| site_id | SWS_FT_FI4 |
| Number of Residues | 3 |
| Details | MOD_RES: (Microbial infection) ADP-ribosylthreonine => ECO:0000269|PubMed:32330457 |
| Chain | Residue | Details |
| C | THR66 | |
| F | THR66 | |
| I | THR66 |
| site_id | SWS_FT_FI5 |
| Number of Residues | 3 |
| Details | MOD_RES: ADP-ribosylglycine => ECO:0000269|PubMed:28525742 |
| Chain | Residue | Details |
| C | GLY76 | |
| F | GLY76 | |
| I | GLY76 |
| site_id | SWS_FT_FI6 |
| Number of Residues | 3 |
| Details | CROSSLNK: Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin) => ECO:0000269|PubMed:16443603 |
| Chain | Residue | Details |
| C | LYS6 | |
| F | LYS6 | |
| I | LYS6 |
| site_id | SWS_FT_FI7 |
| Number of Residues | 6 |
| Details | CROSSLNK: Glycyl lysine isopeptide (Gly-Lys) (interchain with K-? in acceptor proteins) |
| Chain | Residue | Details |
| C | GLY76 | |
| F | GLY76 | |
| I | GLY76 |
| site_id | SWS_FT_FI8 |
| Number of Residues | 6 |
| 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 | |
| I | LYS11 | |
| I | LYS48 |
| site_id | SWS_FT_FI9 |
| Number of Residues | 3 |
| Details | CROSSLNK: Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin) => ECO:0000305|PubMed:15466860 |
| Chain | Residue | Details |
| C | LYS27 | |
| F | LYS27 | |
| I | LYS27 |
| site_id | SWS_FT_FI10 |
| Number of Residues | 3 |
| 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 | |
| I | LYS29 |
| site_id | SWS_FT_FI11 |
| Number of Residues | 3 |
| Details | CROSSLNK: Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin) => ECO:0000269|PubMed:25752577 |
| Chain | Residue | Details |
| C | LYS33 | |
| F | LYS33 | |
| I | LYS33 |
| site_id | SWS_FT_FI12 |
| Number of Residues | 3 |
| 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 | |
| I | LYS63 |
