7YXY
Cryo-EM structure of USP9X, local refinement of monomer
Functional Information from GO Data
| Chain | GOid | namespace | contents |
| A | 0000122 | biological_process | negative regulation of transcription by RNA polymerase II |
| A | 0001764 | biological_process | neuron migration |
| A | 0004197 | molecular_function | cysteine-type endopeptidase activity |
| A | 0004843 | molecular_function | cysteine-type deubiquitinase activity |
| A | 0005515 | molecular_function | protein binding |
| A | 0005634 | cellular_component | nucleus |
| A | 0005737 | cellular_component | cytoplasm |
| A | 0005813 | cellular_component | centrosome |
| A | 0005829 | cellular_component | cytosol |
| A | 0005856 | cellular_component | cytoskeleton |
| A | 0005929 | cellular_component | cilium |
| A | 0006307 | biological_process | DNA alkylation repair |
| A | 0006508 | biological_process | proteolysis |
| A | 0007059 | biological_process | chromosome segregation |
| A | 0007179 | biological_process | transforming growth factor beta receptor signaling pathway |
| A | 0007292 | biological_process | female gamete generation |
| A | 0008104 | biological_process | protein localization |
| A | 0008234 | molecular_function | cysteine-type peptidase activity |
| A | 0016020 | cellular_component | membrane |
| A | 0016477 | biological_process | cell migration |
| A | 0016562 | biological_process | protein import into peroxisome matrix, receptor recycling |
| A | 0016567 | biological_process | protein ubiquitination |
| A | 0016579 | biological_process | protein deubiquitination |
| A | 0030426 | cellular_component | growth cone |
| A | 0030509 | biological_process | BMP signaling pathway |
| A | 0032092 | biological_process | positive regulation of protein binding |
| A | 0032435 | biological_process | negative regulation of proteasomal ubiquitin-dependent protein catabolic process |
| A | 0035520 | biological_process | monoubiquitinated protein deubiquitination |
| A | 0042752 | biological_process | regulation of circadian rhythm |
| A | 0042995 | cellular_component | cell projection |
| A | 0048511 | biological_process | rhythmic process |
| A | 0048675 | biological_process | axon extension |
| A | 0050821 | biological_process | protein stabilization |
| A | 0051301 | biological_process | cell division |
| A | 0060271 | biological_process | cilium assembly |
| A | 0061578 | molecular_function | K63-linked deubiquitinase activity |
| A | 0061824 | biological_process | cytosolic ciliogenesis |
| A | 0070410 | molecular_function | co-SMAD binding |
| A | 0070536 | biological_process | protein K63-linked deubiquitination |
| A | 0071947 | biological_process | protein deubiquitination involved in ubiquitin-dependent protein catabolic process |
| A | 0101005 | molecular_function | deubiquitinase activity |
| A | 0140313 | molecular_function | molecular sequestering activity |
| A | 0180017 | molecular_function | K11-linked deubiquitinase activity |
| A | 1904515 | biological_process | positive regulation of TORC2 signaling |
| A | 1990000 | biological_process | amyloid fibril formation |
| A | 1990380 | molecular_function | K48-linked deubiquitinase activity |
Functional Information from PROSITE/UniProt
| site_id | PS00972 |
| Number of Residues | 16 |
| Details | USP_1 Ubiquitin specific protease (USP) domain signature 1. GLknaGAtCYMNSvIQ |
| Chain | Residue | Details |
| A | GLY1558-GLN1573 |
| site_id | PS00973 |
| Number of Residues | 18 |
| Details | USP_2 Ubiquitin specific protease (USP) domain signature 2. YrLvGVlvHsGqasg..GHY |
| Chain | Residue | Details |
| A | TYR1863-TYR1880 |
Functional Information from SwissProt/UniProt
| site_id | SWS_FT_FI1 |
| Number of Residues | 1 |
| Details | ACT_SITE: Nucleophile => ECO:0000255|PROSITE-ProRule:PRU10092, ECO:0000255|PROSITE-ProRule:PRU10093, ECO:0000305|PubMed:30914461 |
| Chain | Residue | Details |
| A | CYS1566 |
| site_id | SWS_FT_FI2 |
| Number of Residues | 1 |
| Details | ACT_SITE: Proton acceptor => ECO:0000255|PROSITE-ProRule:PRU10092, ECO:0000255|PROSITE-ProRule:PRU10093 |
| Chain | Residue | Details |
| A | HIS1879 |
| site_id | SWS_FT_FI3 |
| Number of Residues | 4 |
| Details | BINDING: BINDING => ECO:0000269|PubMed:30914461, ECO:0007744|PDB:5WCH |
| Chain | Residue | Details |
| A | CYS1727 | |
| A | HIS1729 | |
| A | CYS1771 | |
| A | CYS1774 |
| site_id | SWS_FT_FI4 |
| Number of Residues | 1 |
| Details | MOD_RES: Phosphoserine => ECO:0007744|PubMed:23186163 |
| Chain | Residue | Details |
| A | SER588 |
| site_id | SWS_FT_FI5 |
| Number of Residues | 1 |
| Details | MOD_RES: Phosphothreonine => ECO:0007744|PubMed:23186163 |
| Chain | Residue | Details |
| A | THR590 |
| site_id | SWS_FT_FI6 |
| Number of Residues | 1 |
| Details | MOD_RES: Phosphoserine => ECO:0007744|PubMed:17081983, ECO:0007744|PubMed:18669648, ECO:0007744|PubMed:18691976, ECO:0007744|PubMed:19690332, ECO:0007744|PubMed:21406692, ECO:0007744|PubMed:23186163 |
| Chain | Residue | Details |
| A | SER1600 |
| site_id | SWS_FT_FI7 |
| Number of Residues | 1 |
| Details | MOD_RES: Phosphoserine => ECO:0007744|PubMed:17693683, ECO:0007744|PubMed:18669648, ECO:0007744|PubMed:21406692, ECO:0007744|PubMed:23186163 |
| Chain | Residue | Details |
| A | SER2443 |
| site_id | SWS_FT_FI8 |
| Number of Residues | 1 |
| Details | MOD_RES: Phosphotyrosine => ECO:0007744|PubMed:15592455 |
| Chain | Residue | Details |
| A | TYR2540 |
| site_id | SWS_FT_FI9 |
| Number of Residues | 1 |
| Details | MOD_RES: Phosphoserine => ECO:0007744|PubMed:16964243, ECO:0007744|PubMed:18669648, ECO:0007744|PubMed:20068231, ECO:0007744|PubMed:23186163 |
| Chain | Residue | Details |
| A | SER2547 |
| site_id | SWS_FT_FI10 |
| Number of Residues | 1 |
| Details | MOD_RES: Phosphothreonine => ECO:0007744|PubMed:20068231 |
| Chain | Residue | Details |
| A | THR2551 |
