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Open data
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Basic information
Entry | Database: PDB / ID: 4ydz | ||||||
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Title | Stress-induced protein 1 from Caenorhabditis elegans | ||||||
![]() | Stress-induced protein 1 | ||||||
![]() | CHAPERONE / Molecular Chaperone / sHSP / Heat Shock / Protein Aggregation | ||||||
Function / homology | ![]() HSF1-dependent transactivation / protein metabolic process / embryo development ending in birth or egg hatching / determination of adult lifespan / unfolded protein binding / response to heat / protein refolding / nucleus / cytoplasm / cytosol Similarity search - Function | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() | ||||||
![]() | Fleckenstein, T. / Kastenmueller, A. / Stein, M.L. / Peters, C. / Daake, M. / Krause, M. / Weinfurtner, D. / Haslbeck, M. / Weinkauf, S. / Groll, M. / Buchner, J. | ||||||
Funding support | ![]()
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![]() | ![]() Title: The Chaperone Activity of the Developmental Small Heat Shock Protein Sip1 Is Regulated by pH-Dependent Conformational Changes. Authors: Fleckenstein, T. / Kastenmuller, A. / Stein, M.L. / Peters, C. / Daake, M. / Krause, M. / Weinfurtner, D. / Haslbeck, M. / Weinkauf, S. / Groll, M. / Buchner, J. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 103.8 KB | Display | ![]() |
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PDB format | ![]() | 79.9 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 456 KB | Display | ![]() |
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Full document | ![]() | 463.5 KB | Display | |
Data in XML | ![]() | 17.9 KB | Display | |
Data in CIF | ![]() | 23.3 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
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Links
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Assembly
Deposited unit | ![]()
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Unit cell |
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Noncrystallographic symmetry (NCS) | NCS domain:
NCS domain segments:
NCS ensembles :
NCS oper:
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Components
#1: Protein | Mass: 17866.232 Da / Num. of mol.: 4 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 3.68 Å3/Da / Density % sol: 66.6 % |
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Crystal grow | Temperature: 293 K / Method: vapor diffusion, sitting drop / pH: 6.5 / Details: 100 mM MES, 30% PEG 400, 100 mM NaAc |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: PSI PILATUS 6M / Detector: PIXEL / Date: Sep 3, 2011 |
Radiation | Monochromator: LN2 COOLED FIXED-EXIT. SI(111) / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1 Å / Relative weight: 1 |
Reflection | Resolution: 3.6→50 Å / Num. all: 12051 / Num. obs: 12051 / % possible obs: 96 % / Redundancy: 5.2 % / Rmerge(I) obs: 0.082 / Net I/σ(I): 17.6 |
Reflection shell | Resolution: 3.6→3.7 Å / Rmerge(I) obs: 0.523 / Mean I/σ(I) obs: 4.4 / % possible all: 99 |
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Processing
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Refinement | Resolution: 3.6→15 Å / Cor.coef. Fo:Fc: 0.931 / Cor.coef. Fo:Fc free: 0.907 / SU B: 26.886 / SU ML: 0.388 / Cross valid method: THROUGHOUT / ESU R Free: 0.502 / Stereochemistry target values: MAXIMUM LIKELIHOOD / Details: HYDROGENS HAVE BEEN USED IF PRESENT IN THE INPUT
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Solvent computation | Ion probe radii: 0.8 Å / Shrinkage radii: 0.8 Å / VDW probe radii: 1.2 Å / Solvent model: MASK | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 108.501 Å2
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Refinement step | Cycle: 1 / Resolution: 3.6→15 Å
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Refine LS restraints |
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