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Yorodumi- PDB-1gme: Crystal structure and assembly of an eukaryotic small heat shock ... -
+Open data
-Basic information
Entry | Database: PDB / ID: 1gme | ||||||
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Title | Crystal structure and assembly of an eukaryotic small heat shock protein | ||||||
Components | HEAT SHOCK PROTEIN 16.9BHeat shock response | ||||||
Keywords | CHAPERONE / SMALL HEAT SHOCK PROTEIN / ALPHA-CRYSTALLIN | ||||||
Function / homology | Function and homology information response to salt stress / response to hydrogen peroxide / protein homooligomerization / : / unfolded protein binding / protein folding / protein complex oligomerization / response to heat / cytoplasm Similarity search - Function | ||||||
Biological species | TRITICUM AESTIVUM (bread wheat) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MAD / Resolution: 2.7 Å | ||||||
Authors | Van Montfort, R.L.M. / Basha, E. / Friedrich, K.L. / Slingsby, C. / Vierling, E. | ||||||
Citation | Journal: Nat.Struct.Biol. / Year: 2001 Title: Crystal Structure and Assembly of an Eukaryotic Small Heat Shock Protein Authors: Van Montfort, R.L.M. / Basha, E. / Friedrich, K.L. / Slingsby, C. / Vierling, E. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1gme.cif.gz | 108.6 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1gme.ent.gz | 90.4 KB | Display | PDB format |
PDBx/mmJSON format | 1gme.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/gm/1gme ftp://data.pdbj.org/pub/pdb/validation_reports/gm/1gme | HTTPS FTP |
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-Related structure data
Similar structure data |
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-Links
-Assembly
Deposited unit |
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1 |
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2 |
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Unit cell |
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Noncrystallographic symmetry (NCS) | NCS oper:
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-Components
#1: Protein | Mass: 16881.168 Da / Num. of mol.: 4 Source method: isolated from a genetically manipulated source Source: (gene. exp.) TRITICUM AESTIVUM (bread wheat) / Production host: ESCHERICHIA COLI (E. coli) / Strain (production host): BL21 / References: UniProt: Q41560 #2: Water | ChemComp-HOH / | Sequence details | THE SEQUENCE SHOWS SER AT POSITION 7 INSTEAD OF THR AS REPORTED IN THE SWISSPROT ENTRY. SUBSEQUENT ...THE SEQUENCE SHOWS SER AT POSITION 7 INSTEAD OF THR AS REPORTED IN THE SWISSPROT ENTRY. SUBSEQUENT | |
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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: 2.59 Å3/Da / Density % sol: 52 % / Description: MAD DATA COLLECTED ON BM14 | ||||||||||||||||||||||||||||||||||||||||||||||||
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Crystal grow | pH: 8.5 Details: PROTEIN WAS CRYSTALLIZED FROM 26-29% PEG400, 0.2M SODIUM CITRATE, 0.1M TRIS/HCL PH8.5, pH 8.50 | ||||||||||||||||||||||||||||||||||||||||||||||||
Crystal grow | *PLUS Temperature: 20 ℃ / pH: 7 / Method: other | ||||||||||||||||||||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 120 K |
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Diffraction source | Source: SYNCHROTRON / Site: ESRF / Beamline: ID14-3 / Wavelength: 0.92 |
Detector | Type: MARRESEARCH / Detector: CCD / Date: Sep 15, 1999 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.92 Å / Relative weight: 1 |
Reflection | Resolution: 2.65→30 Å / Num. obs: 19276 / % possible obs: 94.6 % / Redundancy: 5.9 % / Rmerge(I) obs: 0.04 / Net I/σ(I): 13 |
Reflection shell | Resolution: 2.65→2.79 Å / Redundancy: 5.7 % / Rmerge(I) obs: 0.164 / Mean I/σ(I) obs: 4 / % possible all: 96.7 |
Reflection | *PLUS Highest resolution: 2.7 Å / Num. measured all: 170065 / Rmerge(I) obs: 0.04 |
-Processing
Software |
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Refinement | Method to determine structure: MAD / Resolution: 2.7→30 Å / Data cutoff high absF: 10000 / Isotropic thermal model: RESTRAINED / Cross valid method: THROUGHOUT / σ(F): 0 / Stereochemistry target values: MLF
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Displacement parameters | Biso mean: 33.8 Å2
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Refinement step | Cycle: LAST / Resolution: 2.7→30 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 2.7→2.76 Å / Total num. of bins used: 17
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Xplor file |
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Refinement | *PLUS Lowest resolution: 30 Å | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine LS restraints | *PLUS
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