5D0K
Structure of UbE2D2:RNF165:Ub complex
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 |
| C | 0008270 | molecular_function | zinc ion binding |
| C | 0061630 | molecular_function | ubiquitin protein ligase activity |
| 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 |
| F | 0008270 | molecular_function | zinc ion binding |
| F | 0061630 | molecular_function | ubiquitin protein ligase activity |
| 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 |
| I | 0008270 | molecular_function | zinc ion binding |
| I | 0061630 | molecular_function | ubiquitin protein ligase activity |
| J | 0000209 | biological_process | protein polyubiquitination |
| J | 0004842 | molecular_function | ubiquitin-protein transferase activity |
| J | 0005515 | molecular_function | protein binding |
| J | 0005524 | molecular_function | ATP binding |
| J | 0005634 | cellular_component | nucleus |
| J | 0005654 | cellular_component | nucleoplasm |
| J | 0005829 | cellular_component | cytosol |
| J | 0006511 | biological_process | ubiquitin-dependent protein catabolic process |
| J | 0016567 | biological_process | protein ubiquitination |
| J | 0016740 | molecular_function | transferase activity |
| J | 0019787 | molecular_function | ubiquitin-like protein transferase activity |
| J | 0032991 | cellular_component | protein-containing complex |
| J | 0036211 | biological_process | protein modification process |
| J | 0051865 | biological_process | protein autoubiquitination |
| J | 0061630 | molecular_function | ubiquitin protein ligase activity |
| J | 0061631 | molecular_function | ubiquitin conjugating enzyme activity |
| J | 0070062 | cellular_component | extracellular exosome |
| J | 0070936 | biological_process | protein K48-linked ubiquitination |
| L | 0008270 | molecular_function | zinc ion binding |
| L | 0061630 | molecular_function | ubiquitin protein ligase activity |
Functional Information from PDB Data
| site_id | AC1 |
| Number of Residues | 4 |
| Details | binding site for residue ZN C 401 |
| Chain | Residue |
| C | CYS312 |
| C | HIS314 |
| C | CYS331 |
| C | CYS334 |
| site_id | AC2 |
| Number of Residues | 4 |
| Details | binding site for residue ZN C 402 |
| Chain | Residue |
| C | CYS294 |
| C | CYS297 |
| C | HIS317 |
| C | CYS320 |
| site_id | AC3 |
| Number of Residues | 4 |
| Details | binding site for residue ZN F 401 |
| Chain | Residue |
| F | HIS314 |
| F | CYS331 |
| F | CYS334 |
| F | CYS312 |
| site_id | AC4 |
| Number of Residues | 4 |
| Details | binding site for residue ZN F 402 |
| Chain | Residue |
| F | CYS294 |
| F | CYS297 |
| F | HIS317 |
| F | CYS320 |
| site_id | AC5 |
| Number of Residues | 4 |
| Details | binding site for residue ZN I 401 |
| Chain | Residue |
| I | CYS312 |
| I | HIS314 |
| I | CYS331 |
| I | CYS334 |
| site_id | AC6 |
| Number of Residues | 4 |
| Details | binding site for residue ZN I 402 |
| Chain | Residue |
| I | CYS294 |
| I | CYS297 |
| I | HIS317 |
| I | CYS320 |
| site_id | AC7 |
| Number of Residues | 4 |
| Details | binding site for residue ZN L 401 |
| Chain | Residue |
| L | CYS312 |
| L | HIS314 |
| L | CYS331 |
| L | CYS334 |
| site_id | AC8 |
| Number of Residues | 4 |
| Details | binding site for residue ZN L 402 |
| Chain | Residue |
| L | CYS294 |
| L | CYS297 |
| L | HIS317 |
| L | CYS320 |
Functional Information from PROSITE/UniProt
| site_id | PS00299 |
| Number of Residues | 26 |
| Details | UBIQUITIN_1 Ubiquitin domain signature. KakIqDkegIPpdqQrLIFaGkqleD |
| Chain | Residue | Details |
| B | LYS27-ASP52 |
Functional Information from SwissProt/UniProt
| site_id | SWS_FT_FI1 |
| Number of Residues | 8 |
| Details | SITE: Interacts with activating enzyme |
| Chain | Residue | Details |
| B | ARG54 | |
| B | ARG72 | |
| E | ARG54 | |
| E | ARG72 | |
| H | ARG54 | |
| H | ARG72 | |
| K | ARG54 | |
| K | ARG72 |
| site_id | SWS_FT_FI2 |
| Number of Residues | 4 |
| Details | SITE: Essential for function |
| Chain | Residue | Details |
| B | HIS68 | |
| I | GLU302 | |
| I | ASP322 | |
| I | LEU325 | |
| L | SER299 | |
| L | GLU302 | |
| L | ASP322 | |
| L | LEU325 | |
| E | HIS68 | |
| H | HIS68 | |
| K | HIS68 | |
| F | SER299 | |
| F | GLU302 | |
| F | ASP322 | |
| F | LEU325 | |
| I | SER299 |
| site_id | SWS_FT_FI3 |
| Number of Residues | 4 |
| 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 |
| B | SER65 | |
| E | SER65 | |
| H | SER65 | |
| K | SER65 |
| site_id | SWS_FT_FI4 |
| Number of Residues | 4 |
| Details | MOD_RES: (Microbial infection) ADP-ribosylthreonine => ECO:0000269|PubMed:32330457 |
| Chain | Residue | Details |
| B | THR66 | |
| E | THR66 | |
| H | THR66 | |
| K | THR66 |
| site_id | SWS_FT_FI5 |
| Number of Residues | 4 |
| Details | MOD_RES: ADP-ribosylglycine => ECO:0000269|PubMed:28525742 |
| Chain | Residue | Details |
| B | GLY76 | |
| E | GLY76 | |
| H | GLY76 | |
| K | GLY76 |
| site_id | SWS_FT_FI6 |
| Number of Residues | 4 |
| Details | CROSSLNK: Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin) => ECO:0000269|PubMed:16443603 |
| Chain | Residue | Details |
| B | LYS6 | |
| E | LYS6 | |
| H | LYS6 | |
| K | LYS6 |
| site_id | SWS_FT_FI7 |
| Number of Residues | 8 |
| Details | CROSSLNK: Glycyl lysine isopeptide (Gly-Lys) (interchain with K-? in acceptor proteins) |
| Chain | Residue | Details |
| B | GLY76 | |
| E | GLY76 | |
| H | GLY76 | |
| K | GLY76 |
| site_id | SWS_FT_FI8 |
| Number of Residues | 8 |
| Details | CROSSLNK: Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin) => ECO:0000269|PubMed:16443603, ECO:0000269|PubMed:16543144 |
| Chain | Residue | Details |
| B | LYS11 | |
| B | LYS48 | |
| E | LYS11 | |
| E | LYS48 | |
| H | LYS11 | |
| H | LYS48 | |
| K | LYS11 | |
| K | LYS48 |
| site_id | SWS_FT_FI9 |
| Number of Residues | 4 |
| Details | CROSSLNK: Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin) => ECO:0000305|PubMed:15466860 |
| Chain | Residue | Details |
| B | LYS27 | |
| E | LYS27 | |
| H | LYS27 | |
| K | LYS27 |
| site_id | SWS_FT_FI10 |
| Number of Residues | 4 |
| 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 |
| B | LYS29 | |
| E | LYS29 | |
| H | LYS29 | |
| K | LYS29 |
| site_id | SWS_FT_FI11 |
| Number of Residues | 4 |
| Details | CROSSLNK: Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin) => ECO:0000269|PubMed:25752577 |
| Chain | Residue | Details |
| B | LYS33 | |
| E | LYS33 | |
| H | LYS33 | |
| K | LYS33 |
| site_id | SWS_FT_FI12 |
| Number of Residues | 4 |
| Details | CROSSLNK: Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin) => ECO:0000269|PubMed:16543144, ECO:0000269|PubMed:18719106 |
| Chain | Residue | Details |
| B | LYS63 | |
| E | LYS63 | |
| H | LYS63 | |
| K | LYS63 |
