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Open data
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Basic information
Entry | Database: PDB / ID: 4tzq | ||||||
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Title | Structure of C. elegans HTP-1 bound to HTP-3 motif-1 | ||||||
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![]() | PEPTIDE BINDING PROTEIN / ![]() ![]() | ||||||
Function / homology | ![]() meiotic DNA double-strand break formation / regulation of centriole-centriole cohesion / meiotic chromosome segregation / homologous chromosome pairing at meiosis / ![]() ![]() ![]() Similarity search - Function | ||||||
Biological species | ![]() ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Rosenberg, S.C. / Corbett, K.D. | ||||||
Funding support | ![]()
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![]() | ![]() Title: The Chromosome Axis Controls Meiotic Events through a Hierarchical Assembly of HORMA Domain Proteins. Authors: Kim, Y. / Rosenberg, S.C. / Kugel, C.L. / Kostow, N. / Rog, O. / Davydov, V. / Su, T.Y. / Dernburg, A.F. / Corbett, K.D. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 212.2 KB | Display | ![]() |
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PDB format | ![]() | 170.3 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Arichive directory | ![]() ![]() | HTTPS FTP |
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-Related structure data
Related structure data | ![]() 4trkC ![]() 4tzjC ![]() 4tzlC ![]() 4tzmC ![]() 4tznC ![]() 4tzoSC ![]() 4tzsC C: citing same article ( S: Starting model for refinement |
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Similar structure data |
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Links
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Assembly
Deposited unit | ![]()
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1 | ![]()
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2 | ![]()
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Unit cell |
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Components
#1: Protein | Mass: 28742.455 Da / Num. of mol.: 2 / Fragment: UNP residues 1-253 / Mutation: P84L Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() ![]() ![]() #2: Protein/peptide | Mass: 1883.116 Da / Num. of mol.: 2 / Fragment: UNP residues 485-501 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() ![]() ![]() #3: Water | ChemComp-HOH / | ![]() |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.33 Å3/Da / Density % sol: 47.24 % |
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Crystal grow![]() | Temperature: 298.15 K / Method: vapor diffusion, hanging drop / pH: 7.5 / Details: 15-22% PEG 3350 / PH range: 7.5 - 8.0 |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: ADSC QUANTUM 315r / Detector: CCD / Date: Dec 5, 2013 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength![]() |
Reflection | Resolution: 2.3→50 Å / Num. obs: 24480 / % possible obs: 97.3 % / Redundancy: 3.6 % / Rsym value: 0.073 / Net I/σ(I): 14.2 |
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Processing
Software | Name: PHENIX / Version: (phenix.refine: 1.9_1692) / Classification: refinement | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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Refinement | Method to determine structure![]() ![]() Starting model: 4TZO Resolution: 2.3→38.792 Å / SU ML: 0.28 / Cross valid method: FREE R-VALUE / σ(F): 1.57 / Phase error: 28.53 / 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 | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.3→38.792 Å
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Refine LS restraints |
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LS refinement shell |
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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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