+Open data
-Basic information
Entry | Database: PDB / ID: 3kae | ||||||
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Title | Cdc27 N-terminus | ||||||
Components | Possible protein of nuclear scaffold | ||||||
Keywords | PROTEIN BINDING / tetratricopeptide repeat protein | ||||||
Function / homology | Function and homology information Tetratricopeptide repeat / : / Tetratricopeptide repeat domain / Tetratricopeptide repeat / TPR repeat region circular profile. / TPR repeat profile. / Tetratricopeptide repeats / Tetratricopeptide repeat / Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat / Alpha Horseshoe ...Tetratricopeptide repeat / : / Tetratricopeptide repeat domain / Tetratricopeptide repeat / TPR repeat region circular profile. / TPR repeat profile. / Tetratricopeptide repeats / Tetratricopeptide repeat / Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat / Alpha Horseshoe / Tetratricopeptide-like helical domain superfamily / Mainly Alpha Similarity search - Domain/homology | ||||||
Biological species | Encephalitozoon cuniculi (fungus) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / molecular replacement / Resolution: 2.298 Å | ||||||
Authors | Barford, D. / Zhang, Z. / Roe, S.M. | ||||||
Citation | Journal: J.Mol.Biol. / Year: 2010 Title: Molecular structure of the N-terminal domain of the APC/C subunit Cdc27 reveals a homo-dimeric tetratricopeptide repeat architecture Authors: Zhang, Z. / Roe, S.M. / Diogon, M. / Kong, E. / El Alaoui, H. / Barford, D. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 3kae.cif.gz | 370.6 KB | Display | PDBx/mmCIF format |
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PDB format | pdb3kae.ent.gz | 306.2 KB | Display | PDB format |
PDBx/mmJSON format | 3kae.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 3kae_validation.pdf.gz | 480.6 KB | Display | wwPDB validaton report |
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Full document | 3kae_full_validation.pdf.gz | 498.5 KB | Display | |
Data in XML | 3kae_validation.xml.gz | 35.7 KB | Display | |
Data in CIF | 3kae_validation.cif.gz | 48.1 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/ka/3kae ftp://data.pdbj.org/pub/pdb/validation_reports/ka/3kae | HTTPS FTP |
-Related structure data
Similar structure data |
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-Links
-Assembly
Deposited unit |
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Unit cell |
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Noncrystallographic symmetry (NCS) | NCS domain:
NCS domain segments:
NCS oper:
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-Components
#1: Protein | Mass: 28222.584 Da / Num. of mol.: 4 / Fragment: N-terminal domain, residues 1-242 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Encephalitozoon cuniculi (fungus) / Gene: NC_003237 / Plasmid: pOPINS / Production host: Escherichia coli (E. coli) / References: UniProt: Q8SQV4 #2: Chemical | #3: Chemical | ChemComp-CL / | #4: Chemical | ChemComp-SO4 / | #5: 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: 2.16 Å3/Da / Density % sol: 43.02 % / Mosaicity: 0.52 ° |
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-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: SYNCHROTRON / Site: Diamond / Beamline: I02 / Wavelength: 0.979 Å |
Detector | Type: ADSC QUANTUM 210 / Detector: CCD |
Radiation | Monochromator: SI 111 / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.979 Å / Relative weight: 1 |
Reflection | Resolution: 2.298→85.709 Å / Num. obs: 40000 / % possible obs: 95.5 % / Redundancy: 2.8 % / Rsym value: 0.049 |
-Phasing
Phasing | Method: molecular replacement |
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-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT / Resolution: 2.298→53.533 Å / Occupancy max: 1 / Occupancy min: 0.5 / FOM work R set: 0.729 / SU ML: 0.25 / σ(F): 1.98 / Stereochemistry target values: ML
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Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.11 Å / Solvent model: FLAT BULK SOLVENT MODEL / Bsol: 67.203 Å2 / ksol: 0.333 e/Å3 | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso max: 231.53 Å2 / Biso mean: 70.241 Å2 / Biso min: 25.34 Å2
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Refinement step | Cycle: LAST / Resolution: 2.298→53.533 Å
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Refine LS restraints |
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Refine LS restraints NCS |
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LS refinement shell | Refine-ID: X-RAY DIFFRACTION / Total num. of bins used: 10
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Refinement TLS params. | Method: refined / Refine-ID: X-RAY DIFFRACTION
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Refinement TLS group |
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