4W4U
Structure of yeast SAGA DUBm with Sgf73 Y57A mutant at 2.8 angstroms resolution
Functional Information from GO Data
| Chain | GOid | namespace | contents |
| A | 0004843 | molecular_function | cysteine-type deubiquitinase activity |
| A | 0005634 | cellular_component | nucleus |
| A | 0006508 | biological_process | proteolysis |
| A | 0008233 | molecular_function | peptidase activity |
| A | 0008234 | molecular_function | cysteine-type peptidase activity |
| A | 0008270 | molecular_function | zinc ion binding |
| A | 0016579 | biological_process | protein deubiquitination |
| A | 0016787 | molecular_function | hydrolase activity |
| A | 0046872 | molecular_function | metal ion binding |
| B | 0000124 | cellular_component | SAGA complex |
| B | 0000932 | cellular_component | P-body |
| B | 0003713 | molecular_function | transcription coactivator activity |
| B | 0005634 | cellular_component | nucleus |
| B | 0005643 | cellular_component | nuclear pore |
| B | 0005654 | cellular_component | nucleoplasm |
| B | 0005737 | cellular_component | cytoplasm |
| B | 0006325 | biological_process | chromatin organization |
| B | 0006368 | biological_process | transcription elongation by RNA polymerase II |
| B | 0006406 | biological_process | mRNA export from nucleus |
| B | 0015031 | biological_process | protein transport |
| B | 0045893 | biological_process | positive regulation of DNA-templated transcription |
| B | 0051028 | biological_process | mRNA transport |
| B | 0070390 | cellular_component | transcription export complex 2 |
| B | 0071819 | cellular_component | DUBm complex |
| C | 0000124 | cellular_component | SAGA complex |
| C | 0003713 | molecular_function | transcription coactivator activity |
| C | 0005634 | cellular_component | nucleus |
| C | 0006325 | biological_process | chromatin organization |
| C | 0008270 | molecular_function | zinc ion binding |
| C | 0008301 | molecular_function | DNA binding, bending |
| C | 0045893 | biological_process | positive regulation of DNA-templated transcription |
| C | 0046872 | molecular_function | metal ion binding |
| C | 0070461 | cellular_component | SAGA-type complex |
| C | 0071819 | cellular_component | DUBm complex |
| D | 0004843 | molecular_function | cysteine-type deubiquitinase activity |
| D | 0005634 | cellular_component | nucleus |
| D | 0006508 | biological_process | proteolysis |
| D | 0008233 | molecular_function | peptidase activity |
| D | 0008234 | molecular_function | cysteine-type peptidase activity |
| D | 0008270 | molecular_function | zinc ion binding |
| D | 0016579 | biological_process | protein deubiquitination |
| D | 0016787 | molecular_function | hydrolase activity |
| D | 0046872 | molecular_function | metal ion binding |
| F | 0000124 | cellular_component | SAGA complex |
| F | 0000932 | cellular_component | P-body |
| F | 0003713 | molecular_function | transcription coactivator activity |
| F | 0005634 | cellular_component | nucleus |
| F | 0005643 | cellular_component | nuclear pore |
| F | 0005654 | cellular_component | nucleoplasm |
| F | 0005737 | cellular_component | cytoplasm |
| F | 0006325 | biological_process | chromatin organization |
| F | 0006368 | biological_process | transcription elongation by RNA polymerase II |
| F | 0006406 | biological_process | mRNA export from nucleus |
| F | 0015031 | biological_process | protein transport |
| F | 0045893 | biological_process | positive regulation of DNA-templated transcription |
| F | 0051028 | biological_process | mRNA transport |
| F | 0070390 | cellular_component | transcription export complex 2 |
| F | 0071819 | cellular_component | DUBm complex |
| G | 0000124 | cellular_component | SAGA complex |
| G | 0003713 | molecular_function | transcription coactivator activity |
| G | 0005634 | cellular_component | nucleus |
| G | 0006325 | biological_process | chromatin organization |
| G | 0008270 | molecular_function | zinc ion binding |
| G | 0008301 | molecular_function | DNA binding, bending |
| G | 0045893 | biological_process | positive regulation of DNA-templated transcription |
| G | 0046872 | molecular_function | metal ion binding |
| G | 0070461 | cellular_component | SAGA-type complex |
| G | 0071819 | cellular_component | DUBm complex |
Functional Information from PDB Data
| site_id | AC1 |
| Number of Residues | 4 |
| Details | binding site for residue ZN A 501 |
| Chain | Residue |
| A | CYS4 |
| A | HIS6 |
| A | CYS96 |
| A | CYS99 |
| site_id | AC2 |
| Number of Residues | 4 |
| Details | binding site for residue ZN A 502 |
| Chain | Residue |
| A | CYS46 |
| A | CYS49 |
| A | CYS68 |
| A | HIS73 |
| site_id | AC3 |
| Number of Residues | 4 |
| Details | binding site for residue ZN A 503 |
| Chain | Residue |
| A | CYS271 |
| A | CYS273 |
| A | HIS276 |
| A | HIS250 |
| site_id | AC4 |
| Number of Residues | 4 |
| Details | binding site for residue ZN A 504 |
| Chain | Residue |
| A | CYS60 |
| A | CYS63 |
| A | HIS77 |
| A | HIS83 |
| site_id | AC5 |
| Number of Residues | 4 |
| Details | binding site for residue ZN A 505 |
| Chain | Residue |
| A | HIS170 |
| A | CYS174 |
| A | CYS182 |
| A | CYS185 |
| site_id | AC6 |
| Number of Residues | 4 |
| Details | binding site for residue ZN A 506 |
| Chain | Residue |
| A | CYS289 |
| A | CYS292 |
| A | CYS336 |
| A | CYS339 |
| site_id | AC7 |
| Number of Residues | 3 |
| Details | binding site for residue ZN E 101 |
| Chain | Residue |
| E | CYS78 |
| E | CYS81 |
| E | HIS93 |
| site_id | AC8 |
| Number of Residues | 4 |
| Details | binding site for residue ZN D 501 |
| Chain | Residue |
| D | CYS4 |
| D | HIS6 |
| D | CYS96 |
| D | CYS99 |
| site_id | AC9 |
| Number of Residues | 4 |
| Details | binding site for residue ZN D 502 |
| Chain | Residue |
| D | HIS170 |
| D | CYS174 |
| D | CYS182 |
| D | CYS185 |
| site_id | AD1 |
| Number of Residues | 4 |
| Details | binding site for residue ZN D 503 |
| Chain | Residue |
| D | HIS250 |
| D | CYS271 |
| D | CYS273 |
| D | HIS276 |
| site_id | AD2 |
| Number of Residues | 4 |
| Details | binding site for residue ZN D 504 |
| Chain | Residue |
| D | CYS46 |
| D | CYS49 |
| D | CYS68 |
| D | HIS73 |
| site_id | AD3 |
| Number of Residues | 4 |
| Details | binding site for residue ZN D 505 |
| Chain | Residue |
| D | CYS60 |
| D | CYS63 |
| D | HIS77 |
| D | HIS83 |
| site_id | AD4 |
| Number of Residues | 4 |
| Details | binding site for residue ZN H 101 |
| Chain | Residue |
| H | CYS78 |
| H | CYS81 |
| H | HIS93 |
| H | HOH202 |
Functional Information from PROSITE/UniProt
| site_id | PS00972 |
| Number of Residues | 16 |
| Details | USP_1 Ubiquitin specific protease (USP) domain signature 1. GLinmGStCFMSSiLQ |
| Chain | Residue | Details |
| A | GLY138-GLN153 |
| site_id | PS00973 |
| Number of Residues | 18 |
| Details | USP_2 Ubiquitin specific protease (USP) domain signature 2. YeLiGIvsHkGtvne..GHY |
| Chain | Residue | Details |
| A | TYR411-TYR428 |
Functional Information from SwissProt/UniProt
| site_id | SWS_FT_FI4 |
| Number of Residues | 6 |
| Details | Binding site: {"evidences":[{"source":"PubMed","id":"20395473","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"20434206","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"3M99","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"3MHH","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"3MHS","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4FIP","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4FJC","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4FK5","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4W4U","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4WA6","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4ZUX","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"6AQR","evidenceCode":"ECO:0007744"}]} |
| Chain | Residue | Details |
