+Open data
-Basic information
Entry | Database: PDB / ID: 1a32 | ||||||
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Title | RIBOSOMAL PROTEIN S15 FROM BACILLUS STEAROTHERMOPHILUS | ||||||
Components | RIBOSOMAL PROTEIN S15 | ||||||
Keywords | RIBOSOMAL PROTEIN / MULTIWAVELENGTH ANOMALOUS DIFFRACTION / PROTEIN-RNA / RIBOSOMAL PROTEIN INTERACTIONS / RIBOSOME / RNA-BINDING | ||||||
Function / homology | Function and homology information rRNA binding / ribosome / structural constituent of ribosome / translation / ribonucleoprotein complex / cytoplasm Similarity search - Function | ||||||
Biological species | Geobacillus stearothermophilus (bacteria) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MAD / Resolution: 2.1 Å | ||||||
Authors | Clemons Junior, W.M. / Davies, C. / White, S.W. / Ramakrishnan, V. | ||||||
Citation | Journal: Structure / Year: 1998 Title: Conformational variability of the N-terminal helix in the structure of ribosomal protein S15. Authors: Clemons Jr., W.M. / Davies, C. / White, S.W. / Ramakrishnan, V. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1a32.cif.gz | 29.3 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1a32.ent.gz | 19.6 KB | Display | PDB format |
PDBx/mmJSON format | 1a32.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/a3/1a32 ftp://data.pdbj.org/pub/pdb/validation_reports/a3/1a32 | 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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Unit cell |
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-Components
#1: Protein | Mass: 10586.309 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Geobacillus stearothermophilus (bacteria) Cell line: BL21 / Cellular location: RIBOSOME / Plasmid: PET-13A / Species (production host): Escherichia coli / Production host: Escherichia coli BL21(DE3) (bacteria) / Strain (production host): BL21 (DE3) / References: UniProt: P05766 |
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#2: Water | ChemComp-HOH / |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
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-Sample preparation
Crystal | Density Matthews: 1.99 Å3/Da / Density % sol: 38 % |
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Crystal grow | pH: 6.5 / Details: 3.0M NA/K PHOSPHATE PH 6.5 |
Crystal grow | *PLUS Temperature: 23 ℃ / Method: unknown |
Components of the solutions | *PLUS Conc.: 2.4-3.0 M / Common name: Na/KPO4 |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: SYNCHROTRON / Site: NSLS / Beamline: X12C / Wavelength: 1.5418 |
Detector | Type: RIGAKU RAXIS IV / Detector: IMAGE PLATE / Date: May 1, 1997 / Details: MIRRORS |
Radiation | Monochromator: NI FILTER / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.5418 Å / Relative weight: 1 |
Reflection | Resolution: 2.1→100 Å / Num. obs: 139136 / % possible obs: 99.5 % / Observed criterion σ(I): 0 / Redundancy: 4.5 % / Rmerge(I) obs: 0.075 / Rsym value: 0.075 / Net I/σ(I): 12 |
Reflection shell | Resolution: 2.05→2.13 Å / Redundancy: 5 % / Rmerge(I) obs: 0.374 / Mean I/σ(I) obs: 3 / Rsym value: 0.379 / % possible all: 99.2 |
Reflection shell | *PLUS Rmerge(I) obs: 0.343 |
-Processing
Software |
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Refinement | Method to determine structure: MAD / Resolution: 2.1→6 Å / Cross valid method: THROUGHOUT / σ(F): 0
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Refinement step | Cycle: LAST / Resolution: 2.1→6 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 2.1→2.2 Å / Rfactor Rfree error: 0 / Total num. of bins used: 8
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Software | *PLUS Name: X-PLOR / Version: 3.8 / Classification: refinement | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
LS refinement shell | *PLUS Rfactor obs: 0.345 |