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- PDB-2f1y: Crystal structure of the TRAF-like domain of HAUSP/USP7 bound to ... -
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Basic information
Entry | Database: PDB / ID: 2f1y | ||||||
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Title | Crystal structure of the TRAF-like domain of HAUSP/USP7 bound to a MDM2 peptide | ||||||
![]() | HAUSP/USP7 | ||||||
![]() | HYDROLASE / HAUSP / USP7 / MDM2 / UBP / TRAF_like domain / MDM2 recognition / substrate binding | ||||||
Function / homology | ![]() regulation of telomere capping / monoubiquitinated protein deubiquitination / regulation of retrograde transport, endosome to Golgi / cellular response to vitamin B1 / response to formaldehyde / response to water-immersion restraint stress / deubiquitinase activity / traversing start control point of mitotic cell cycle / negative regulation of intrinsic apoptotic signaling pathway by p53 class mediator / response to ether ...regulation of telomere capping / monoubiquitinated protein deubiquitination / regulation of retrograde transport, endosome to Golgi / cellular response to vitamin B1 / response to formaldehyde / response to water-immersion restraint stress / deubiquitinase activity / traversing start control point of mitotic cell cycle / negative regulation of intrinsic apoptotic signaling pathway by p53 class mediator / response to ether / negative regulation of signal transduction by p53 class mediator / fibroblast activation / atrial septum development / receptor serine/threonine kinase binding / DNA alkylation repair / Trafficking of AMPA receptors / positive regulation of vascular associated smooth muscle cell migration / regulation of DNA-binding transcription factor activity / peroxisome proliferator activated receptor binding / SUMO transferase activity / negative regulation of protein processing / response to iron ion / K48-linked deubiquitinase activity / response to steroid hormone / NEDD8 ligase activity / symbiont-mediated disruption of host cell PML body / AKT phosphorylates targets in the cytosol / atrioventricular valve morphogenesis / cellular response to peptide hormone stimulus / ventricular septum development / negative regulation of gene expression via chromosomal CpG island methylation / endocardial cushion morphogenesis / negative regulation of NF-kappaB transcription factor activity / positive regulation of muscle cell differentiation / SUMOylation of ubiquitinylation proteins / cellular response to alkaloid / blood vessel development / regulation of protein catabolic process / protein deubiquitination / cardiac septum morphogenesis / Constitutive Signaling by AKT1 E17K in Cancer / ligase activity / negative regulation of DNA damage response, signal transduction by p53 class mediator / response to magnesium ion / SUMOylation of transcription factors / protein sumoylation / protein localization to nucleus / negative regulation of proteasomal ubiquitin-dependent protein catabolic process / cellular response to UV-C / blood vessel remodeling / cellular response to estrogen stimulus / protein autoubiquitination / transcription-coupled nucleotide-excision repair / cellular response to actinomycin D / negative regulation of gluconeogenesis / ribonucleoprotein complex binding / negative regulation of TORC1 signaling / positive regulation of vascular associated smooth muscle cell proliferation / DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest / NPAS4 regulates expression of target genes / transcription repressor complex / regulation of heart rate / Regulation of PTEN localization / positive regulation of mitotic cell cycle / Synthesis of active ubiquitin: roles of E1 and E2 enzymes / positive regulation of protein export from nucleus / regulation of signal transduction by p53 class mediator / response to cocaine / proteolysis involved in protein catabolic process / ubiquitin binding / Stabilization of p53 / Regulation of RUNX3 expression and activity / protein destabilization / RING-type E3 ubiquitin transferase / regulation of protein stability / establishment of protein localization / Oncogene Induced Senescence / regulation of circadian rhythm / Regulation of TP53 Activity through Methylation / Transcription-Coupled Nucleotide Excision Repair (TC-NER) / Formation of TC-NER Pre-Incision Complex / cellular response to gamma radiation / response to toxic substance / cellular response to growth factor stimulus / PML body / cellular response to hydrogen peroxide / Dual incision in TC-NER / Gap-filling DNA repair synthesis and ligation in TC-NER / protein polyubiquitination / ubiquitin-protein transferase activity / endocytic vesicle membrane / ubiquitin protein ligase activity / disordered domain specific binding / Signaling by ALK fusions and activated point mutants / rhythmic process / Regulation of TP53 Degradation / positive regulation of proteasomal ubiquitin-dependent protein catabolic process / p53 binding / negative regulation of neuron projection development / chromosome Similarity search - Function | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Hu, M. / Gu, L. / Jeffrey, P.D. / Shi, Y. | ||||||
![]() | ![]() Title: Structural Basis of Competitive Recognition of p53 and MDM2 by HAUSP/USP7: Implications for the Regulation of the p53-MDM2 Pathway. Authors: Hu, M. / Gu, L. / Li, M. / Jeffrey, P.D. / Gu, W. / Shi, Y. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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PDBx/mmCIF format | ![]() | 45.9 KB | Display | ![]() |
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PDB format | ![]() | 31.1 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 368.6 KB | Display | ![]() |
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Full document | ![]() | 369.3 KB | Display | |
Data in XML | ![]() | 4 KB | Display | |
Data in CIF | ![]() | 6.8 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 2f1wSC ![]() 2f1xC ![]() 2f1zC S: Starting model for refinement C: citing same article ( |
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Similar structure data |
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Assembly
Deposited unit | ![]()
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Unit cell |
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Components
#1: Protein | Mass: 18555.512 Da / Num. of mol.: 1 Fragment: HAUSP N-terminal domain with MDM2 peptide fused to its C-terminal Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() |
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#2: Water | ChemComp-HOH / |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 1.94 Å3/Da / Density % sol: 36.64 % |
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Crystal grow | Temperature: 293 K / Method: vapor diffusion, hanging drop / pH: 8.5 Details: 26% PEG4000, 300 mM calcium chloride, pH 8.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: ADSC QUANTUM 4 / Detector: CCD / Date: Feb 1, 2005 |
Radiation | Monochromator: focusing mirror / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.1 Å / Relative weight: 1 |
Reflection | Resolution: 1.7→99 Å / Num. all: 31380 / Num. obs: 30752 / % possible obs: 98 % / Observed criterion σ(F): 0 / Observed criterion σ(I): 0 |
Reflection shell | Resolution: 1.7→1.78 Å / % possible all: 92.7 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: PDB Entry: 2F1W Resolution: 1.7→20 Å / σ(F): 0 / Stereochemistry target values: Engh & Huber
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Refinement step | Cycle: LAST / Resolution: 1.7→20 Å
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Refine LS restraints |
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