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Yorodumi- PDB-3hqi: Structures of SPOP-Substrate Complexes: Insights into Molecular A... -
+Open data
-Basic information
Entry | Database: PDB / ID: 3hqi | ||||||
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Title | Structures of SPOP-Substrate Complexes: Insights into Molecular Architectures of BTB-Cul3 Ubiquitin Ligases: SPOPMATHx/BTB/3-box-PucSBC1 | ||||||
Components |
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Keywords | PROTEIN BINDING / Ligase / SPOP / E3 / Ubiquitin / Puckered / Nucleus / Ubl conjugation pathway | ||||||
Function / homology | Function and homology information regulation of proteolysis / Cul3-RING ubiquitin ligase complex / molecular function inhibitor activity / Hedgehog 'on' state / protein polyubiquitination / proteasome-mediated ubiquitin-dependent protein catabolic process / nuclear speck / ubiquitin protein ligase binding / nucleoplasm / identical protein binding ...regulation of proteolysis / Cul3-RING ubiquitin ligase complex / molecular function inhibitor activity / Hedgehog 'on' state / protein polyubiquitination / proteasome-mediated ubiquitin-dependent protein catabolic process / nuclear speck / ubiquitin protein ligase binding / nucleoplasm / identical protein binding / nucleus / cytoplasm Similarity search - Function | ||||||
Biological species | Homo sapiens (human) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 2.62 Å | ||||||
Authors | Zhuang, M. / Schulman, B.A. | ||||||
Citation | Journal: Mol.Cell / Year: 2009 Title: Structures of SPOP-substrate complexes: insights into molecular architectures of BTB-Cul3 ubiquitin ligases. Authors: Zhuang, M. / Calabrese, M.F. / Liu, J. / Waddell, M.B. / Nourse, A. / Hammel, M. / Miller, D.J. / Walden, H. / Duda, D.M. / Seyedin, S.N. / Hoggard, T. / Harper, J.W. / White, K.P. / Schulman, B.A. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 3hqi.cif.gz | 125.8 KB | Display | PDBx/mmCIF format |
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PDB format | pdb3hqi.ent.gz | 98.2 KB | Display | PDB format |
PDBx/mmJSON format | 3hqi.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 3hqi_validation.pdf.gz | 452.2 KB | Display | wwPDB validaton report |
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Full document | 3hqi_full_validation.pdf.gz | 463.1 KB | Display | |
Data in XML | 3hqi_validation.xml.gz | 23.3 KB | Display | |
Data in CIF | 3hqi_validation.cif.gz | 31.9 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/hq/3hqi ftp://data.pdbj.org/pub/pdb/validation_reports/hq/3hqi | HTTPS FTP |
-Related structure data
Related structure data | 3hqhSC 3hqlC 3hqmC 3hsvC 3htmC 3hu6C 3hveC 3ivqC 3ivvC S: Starting model for refinement C: citing same article (ref.) |
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Similar structure data |
-Links
-Assembly
Deposited unit |
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1 |
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Unit cell |
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-Components
#1: Protein | Mass: 35228.309 Da / Num. of mol.: 2 / Fragment: UNP residues 28-329 / Mutation: D140G Source method: isolated from a genetically manipulated source Source: (gene. exp.) Homo sapiens (human) / Gene: SPOP / Production host: Escherichia coli (E. coli) / References: UniProt: O43791 #2: Protein/peptide | Mass: 751.737 Da / Num. of mol.: 2 / Source method: obtained synthetically #3: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
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-Sample preparation
Crystal | Density Matthews: 2.77 Å3/Da / Density % sol: 55.58 % |
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Crystal grow | Method: vapor diffusion, hanging drop / pH: 5.5 / Details: pH 5.5, VAPOR DIFFUSION, HANGING DROP |
-Data collection
Diffraction source | Source: SYNCHROTRON / Site: APS / Beamline: 24-ID-C / Wavelength: 1 Å |
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Detector | Date: Jul 31, 2008 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1 Å / Relative weight: 1 |
Reflection | Resolution: 2.62→50 Å / Num. all: 24800 / Num. obs: 24800 / Observed criterion σ(F): 0 / Redundancy: 4.6 % / Rsym value: 0.106 / Net I/σ(I): 20 |
Reflection shell | Resolution: 2.62→2.71 Å / Redundancy: 3.8 % / Mean I/σ(I) obs: 3.7 / Num. unique all: 2213 / Rsym value: 0.296 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: PDB ENTRY 3HQH Resolution: 2.62→50 Å / σ(F): 0 / σ(I): 3.7
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Displacement parameters |
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Refinement step | Cycle: LAST / Resolution: 2.62→50 Å
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