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Yorodumi- PDB-3gw1: The structure of the Caulobacter crescentus CLPs protease adaptor... -
+Open data
-Basic information
Entry | Database: PDB / ID: 3gw1 | ||||||
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Title | The structure of the Caulobacter crescentus CLPs protease adaptor protein in complex with FGG tripeptide | ||||||
Components |
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Keywords | PEPTIDE BINDING PROTEIN / adaptor / protein-peptide complex / peptide-binding protein | ||||||
Function / homology | Function and homology information | ||||||
Biological species | Caulobacter vibrioides (bacteria) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 2.36 Å | ||||||
Authors | Baker, T.A. / Roman-Hernandez, G. / Sauer, R.T. / Grant, R.A. | ||||||
Citation | Journal: Proc.Natl.Acad.Sci.USA / Year: 2009 Title: Molecular basis of substrate selection by the N-end rule adaptor protein ClpS. Authors: Roman-Hernandez, G. / Grant, R.A. / Sauer, R.T. / Baker, T.A. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 3gw1.cif.gz | 47.2 KB | Display | PDBx/mmCIF format |
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PDB format | pdb3gw1.ent.gz | 32.7 KB | Display | PDB format |
PDBx/mmJSON format | 3gw1.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/gw/3gw1 ftp://data.pdbj.org/pub/pdb/validation_reports/gw/3gw1 | HTTPS FTP |
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-Related structure data
Related structure data | 3g19C 3g1bC 3gq0C 3gq1C 3dnjS S: Starting model for refinement C: citing same article (ref.) |
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Similar structure data |
-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 domain:
NCS domain segments:
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-Components
#1: Protein | Mass: 9944.347 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Caulobacter vibrioides (bacteria) / Strain: CB15 / Gene: clpS / Plasmid: pET23b / Production host: Escherichia coli (E. coli) / References: UniProt: A0A290MK63, UniProt: Q9A5I0*PLUS #2: Protein/peptide | Mass: 279.293 Da / Num. of mol.: 2 / Source method: obtained synthetically #3: Chemical | ChemComp-MG / | #4: 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: 1.625559 Å3/Da / Density % sol: 24.333721 % |
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Crystal grow | Temperature: 300 K / Method: vapor diffusion / pH: 5.5 Details: 0.1 M bis-tris pH 5.5, 0.2 M MgCl2, 25% PEG 3350, vapor diffusion, temperature 300K |
-Data collection
Diffraction | Mean temperature: 100 K | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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Diffraction source | Source: SYNCHROTRON / Site: APS / Beamline: 24-ID-E / Wavelength: 0.97918 Å | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Detector | Type: ADSC QUANTUM 315 / Detector: CCD / Date: Feb 26, 2009 / Details: crystal monochromator | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Radiation | Monochromator: crystal monochromator / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Radiation wavelength | Wavelength: 0.97918 Å / Relative weight: 1 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Reflection | Resolution: 2.36→100 Å / Num. obs: 4895 / % possible obs: 96.1 % / Redundancy: 2.8 % / Rmerge(I) obs: 0.11 / Net I/σ(I): 12.933 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Reflection shell |
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-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: 3dnj Resolution: 2.36→32.719 Å / Occupancy max: 1.05 / Occupancy min: 0.36 / SU ML: 0.45 / σ(F): 1.38 / Phase error: 36.19 / 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: 48.603 Å2 / ksol: 0.351 e/Å3 | ||||||||||||||||||||||||
Displacement parameters | Biso mean: 26.657 Å2
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Refinement step | Cycle: LAST / Resolution: 2.36→32.719 Å
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Refine LS restraints |
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Refine LS restraints NCS |
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LS refinement shell |
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