1TT5
Structure of APPBP1-UBA3-Ubc12N26: a unique E1-E2 interaction required for optimal conjugation of the ubiquitin-like protein NEDD8
Functional Information from GO Data
| Chain | GOid | namespace | contents |
| A | 0005515 | molecular_function | protein binding |
| A | 0005737 | cellular_component | cytoplasm |
| A | 0005829 | cellular_component | cytosol |
| A | 0005886 | cellular_component | plasma membrane |
| A | 0007165 | biological_process | signal transduction |
| A | 0008641 | molecular_function | ubiquitin-like modifier activating enzyme activity |
| A | 0019781 | molecular_function | NEDD8 activating enzyme activity |
| A | 0031625 | molecular_function | ubiquitin protein ligase binding |
| A | 0032991 | cellular_component | protein-containing complex |
| A | 0033314 | biological_process | mitotic DNA replication checkpoint signaling |
| A | 0042981 | biological_process | regulation of apoptotic process |
| A | 0043523 | biological_process | regulation of neuron apoptotic process |
| A | 0045116 | biological_process | protein neddylation |
| A | 0046982 | molecular_function | protein heterodimerization activity |
| A | 0051402 | biological_process | neuron apoptotic process |
| A | 0098978 | cellular_component | glutamatergic synapse |
| A | 0150052 | biological_process | regulation of postsynapse assembly |
| B | 0005515 | molecular_function | protein binding |
| B | 0005634 | cellular_component | nucleus |
| B | 0005737 | cellular_component | cytoplasm |
| B | 0005829 | cellular_component | cytosol |
| B | 0006508 | biological_process | proteolysis |
| B | 0008641 | molecular_function | ubiquitin-like modifier activating enzyme activity |
| B | 0019781 | molecular_function | NEDD8 activating enzyme activity |
| B | 0019788 | molecular_function | NEDD8 transferase activity |
| B | 0032991 | cellular_component | protein-containing complex |
| B | 0036211 | biological_process | protein modification process |
| B | 0042802 | molecular_function | identical protein binding |
| B | 0043687 | biological_process | post-translational protein modification |
| B | 0045116 | biological_process | protein neddylation |
| B | 0046982 | molecular_function | protein heterodimerization activity |
| C | 0005515 | molecular_function | protein binding |
| C | 0005737 | cellular_component | cytoplasm |
| C | 0005829 | cellular_component | cytosol |
| C | 0005886 | cellular_component | plasma membrane |
| C | 0007165 | biological_process | signal transduction |
| C | 0008641 | molecular_function | ubiquitin-like modifier activating enzyme activity |
| C | 0019781 | molecular_function | NEDD8 activating enzyme activity |
| C | 0031625 | molecular_function | ubiquitin protein ligase binding |
| C | 0032991 | cellular_component | protein-containing complex |
| C | 0033314 | biological_process | mitotic DNA replication checkpoint signaling |
| C | 0042981 | biological_process | regulation of apoptotic process |
| C | 0043523 | biological_process | regulation of neuron apoptotic process |
| C | 0045116 | biological_process | protein neddylation |
| C | 0046982 | molecular_function | protein heterodimerization activity |
| C | 0051402 | biological_process | neuron apoptotic process |
| C | 0098978 | cellular_component | glutamatergic synapse |
| C | 0150052 | biological_process | regulation of postsynapse assembly |
| D | 0005515 | molecular_function | protein binding |
| D | 0005634 | cellular_component | nucleus |
| D | 0005737 | cellular_component | cytoplasm |
| D | 0005829 | cellular_component | cytosol |
| D | 0006508 | biological_process | proteolysis |
| D | 0008641 | molecular_function | ubiquitin-like modifier activating enzyme activity |
| D | 0019781 | molecular_function | NEDD8 activating enzyme activity |
| D | 0019788 | molecular_function | NEDD8 transferase activity |
| D | 0032991 | cellular_component | protein-containing complex |
| D | 0036211 | biological_process | protein modification process |
| D | 0042802 | molecular_function | identical protein binding |
| D | 0043687 | biological_process | post-translational protein modification |
| D | 0045116 | biological_process | protein neddylation |
| D | 0046982 | molecular_function | protein heterodimerization activity |
Functional Information from PDB Data
| site_id | AC1 |
| Number of Residues | 4 |
| Details | BINDING SITE FOR RESIDUE ZN B 1014 |
| Chain | Residue |
| B | CYS199 |
| B | CYS202 |
| B | CYS343 |
| B | CYS346 |
| site_id | AC2 |
| Number of Residues | 4 |
| Details | BINDING SITE FOR RESIDUE ZN D 1014 |
| Chain | Residue |
| D | CYS199 |
| D | CYS202 |
| D | CYS343 |
| D | CYS346 |
Functional Information from PROSITE/UniProt
| site_id | PS00865 |
| Number of Residues | 9 |
| Details | UBIQUITIN_ACTIVAT_2 Ubiquitin-activating enzyme active site. PMCTIAsMP |
| Chain | Residue | Details |
| B | PRO214-PRO222 |
Functional Information from SwissProt/UniProt
| site_id | SWS_FT_FI1 |
| Number of Residues | 26 |
| Details | Region: {"description":"Interaction with UBA3"} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI2 |
| Number of Residues | 2 |
| Details | Site: {"description":"Interaction with UBA3"} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI3 |
| Number of Residues | 1 |
| Details | Modified residue: {"description":"N-acetylalanine","evidences":[{"source":"PubMed","id":"22814378","evidenceCode":"ECO:0007744"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI4 |
| Number of Residues | 2 |
| Details | Modified residue: {"description":"N6-acetyllysine","evidences":[{"source":"PubMed","id":"19608861","evidenceCode":"ECO:0007744"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI5 |
| Number of Residues | 2 |
| Details | Modified residue: {"description":"N6-acetyllysine","evidences":[{"source":"UniProtKB","id":"Q8VBW6","evidenceCode":"ECO:0000250"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI6 |
| Number of Residues | 106 |
| Details | Region: {"description":"Interaction with UBE2M N-terminus"} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI7 |
| Number of Residues | 14 |
| Details | Region: {"description":"Interaction with NEDD8"} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI8 |
| Number of Residues | 18 |
| Details | Region: {"description":"Interaction with NAE1","evidences":[{"source":"PubMed","id":"12740388","evidenceCode":"ECO:0000269"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI9 |
| Number of Residues | 2 |
| Details | Active site: {"description":"Glycyl thioester intermediate"} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI10 |
| Number of Residues | 94 |
| Details | Binding site: {"evidences":[{"source":"PubMed","id":"14690597","evidenceCode":"ECO:0000269"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI11 |
| Number of Residues | 2 |
| Details | Site: {"description":"Determines specificity for NEDD8"} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI12 |
| Number of Residues | 1 |
| Details | Modified residue: {"description":"N-acetylmethionine","evidences":[{"source":"PubMed","id":"21940857","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"23201271","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"37316325","evidenceCode":"ECO:0000269"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI13 |
| Number of Residues | 1 |
| Details | Modified residue: {"description":"N-acetylalanine","evidences":[{"source":"PubMed","id":"37316325","evidenceCode":"ECO:0000269"}]} |
| Chain | Residue | Details |
