4DHZ
The structure of h/ceOTUB1-ubiquitin aldehyde-UBC13~Ub
Functional Information from GO Data
| Chain | GOid | namespace | contents |
| A | 0016579 | biological_process | protein deubiquitination |
| A | 0016787 | molecular_function | hydrolase activity |
| F | 0000151 | cellular_component | ubiquitin ligase complex |
| F | 0000166 | molecular_function | nucleotide binding |
| F | 0000209 | biological_process | protein polyubiquitination |
| F | 0000724 | biological_process | double-strand break repair via homologous recombination |
| F | 0000729 | biological_process | DNA double-strand break processing |
| F | 0001650 | cellular_component | fibrillar center |
| F | 0003723 | molecular_function | RNA binding |
| F | 0004842 | molecular_function | ubiquitin-protein transferase activity |
| F | 0005515 | molecular_function | protein binding |
| F | 0005524 | molecular_function | ATP binding |
| F | 0005634 | cellular_component | nucleus |
| F | 0005654 | cellular_component | nucleoplasm |
| F | 0005737 | cellular_component | cytoplasm |
| F | 0005829 | cellular_component | cytosol |
| F | 0006281 | biological_process | DNA repair |
| F | 0006282 | biological_process | regulation of DNA repair |
| F | 0006301 | biological_process | DNA damage tolerance |
| F | 0006513 | biological_process | protein monoubiquitination |
| F | 0006974 | biological_process | DNA damage response |
| F | 0016567 | biological_process | protein ubiquitination |
| F | 0016740 | molecular_function | transferase activity |
| F | 0031371 | cellular_component | ubiquitin conjugating enzyme complex |
| F | 0031372 | cellular_component | UBC13-MMS2 complex |
| F | 0031625 | molecular_function | ubiquitin protein ligase binding |
| F | 0032991 | cellular_component | protein-containing complex |
| F | 0043123 | biological_process | positive regulation of canonical NF-kappaB signal transduction |
| F | 0043130 | molecular_function | ubiquitin binding |
| F | 0043161 | biological_process | proteasome-mediated ubiquitin-dependent protein catabolic process |
| F | 0045739 | biological_process | positive regulation of DNA repair |
| F | 0050852 | biological_process | T cell receptor signaling pathway |
| F | 0061631 | molecular_function | ubiquitin conjugating enzyme activity |
| F | 0070062 | cellular_component | extracellular exosome |
| F | 0070534 | biological_process | protein K63-linked ubiquitination |
| F | 0097027 | molecular_function | ubiquitin-protein transferase activator activity |
| F | 0140374 | biological_process | antiviral innate immune response |
| F | 1902523 | biological_process | positive regulation of protein K63-linked ubiquitination |
| F | 1902533 | biological_process | positive regulation of intracellular signal transduction |
| F | 1904262 | biological_process | negative regulation of TORC1 signaling |
| F | 2000781 | biological_process | positive regulation of double-strand break repair |
Functional Information from PROSITE/UniProt
| site_id | PS00183 |
| Number of Residues | 16 |
| Details | UBC_1 Ubiquitin-conjugating (UBC) active site signature. YHPNVdkl.GrICLdiL |
| Chain | Residue | Details |
| F | TYR76-LEU91 |
| site_id | PS00299 |
| Number of Residues | 26 |
| Details | UBIQUITIN_1 Ubiquitin domain signature. KakIqDkegIPpdqQrLIFaGkqleD |
| Chain | Residue | Details |
| B | LYS527-ASP552 | |
| E | LYS527-ASP552 |
Functional Information from SwissProt/UniProt
| site_id | SWS_FT_FI1 |
| Number of Residues | 16 |
| Details | Region: {"description":"Ubiquitin-conjugating enzyme E2 binding","evidences":[{"source":"PubMed","id":"22325355","evidenceCode":"ECO:0000269"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI2 |
| Number of Residues | 13 |
| Details | Region: {"description":"Free ubiquitin binding","evidences":[{"source":"PubMed","id":"22325355","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"22367539","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"4DHZ","evidenceCode":"ECO:0007744"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI3 |
| Number of Residues | 7 |
| Details | Region: {"description":"Ubiquitin-conjugating enzyme E2 binding","evidences":[{"source":"PubMed","id":"22325355","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"22367539","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"4DHZ","evidenceCode":"ECO:0007744"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI4 |
| Number of Residues | 2 |
| Details | Active site: {"evidences":[{"source":"UniProtKB","id":"Q96DC9","evidenceCode":"ECO:0000250"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI5 |
| Number of Residues | 1 |
| Details | Active site: {"description":"Nucleophile","evidences":[{"source":"UniProtKB","id":"Q96DC9","evidenceCode":"ECO:0000250"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI6 |
| Number of Residues | 4 |
| Details | Site: {"description":"Interacts with free ubiquitin","evidences":[{"source":"PubMed","id":"22325355","evidenceCode":"ECO:0000269"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI7 |
| Number of Residues | 1 |
| Details | Site: {"description":"Interacts with free ubiquitin","evidences":[{"source":"PubMed","id":"22325355","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"22367539","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"4DHZ","evidenceCode":"ECO:0007744"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI8 |
| Number of Residues | 1 |
| Details | Modified residue: {"description":"Phosphotyrosine; by SRC","evidences":[{"source":"PubMed","id":"35927303","evidenceCode":"ECO:0000269"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI9 |
| Number of Residues | 197 |
| Details | Domain: {"description":"OTU","evidences":[{"source":"PROSITE-ProRule","id":"PRU00139","evidenceCode":"ECO:0000255"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI10 |
| Number of Residues | 1 |
| Details | Active site: {"evidences":[{"source":"UniProtKB","id":"Q96FW1","evidenceCode":"ECO:0000250"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI11 |
| Number of Residues | 1 |
| Details | Binding site: {"evidences":[{"source":"UniProtKB","id":"Q5VVQ6","evidenceCode":"ECO:0000250"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI12 |
| Number of Residues | 146 |
| Details | Domain: {"description":"UBC core","evidences":[{"source":"PROSITE-ProRule","id":"PRU00388","evidenceCode":"ECO:0000255"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI13 |
| Number of Residues | 1 |
| Details | Active site: {"description":"Glycyl thioester intermediate","evidences":[{"source":"PROSITE-ProRule","id":"PRU00388","evidenceCode":"ECO:0000255"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI14 |
| Number of Residues | 1 |
| Details | Modified residue: {"description":"N6-acetyllysine","evidences":[{"source":"PubMed","id":"19608861","evidenceCode":"ECO:0007744"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI15 |
| Number of Residues | 2 |
| Details | Cross-link: {"description":"Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ISG15)","evidences":[{"source":"PubMed","id":"16112642","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"16122702","evidenceCode":"ECO:0000269"}]} |
| Chain | Residue | Details |
