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Yorodumi- PDB-1on0: Crystal Structure of Putative Acetyltransferase (YycN) from Bacil... -
+Open data
-Basic information
Entry | Database: PDB / ID: 1on0 | ||||||
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Title | Crystal Structure of Putative Acetyltransferase (YycN) from Bacillus subtilis, NORTHEAST STRUCTURAL GENOMICS CONSORTIUM TARGET SR144 | ||||||
Components | YycN protein | ||||||
Keywords | STRUCTURAL GENOMICS / UNKNOWN FUNCTION / alpha-beta protein with anti-parallel beta strands / PSI / Protein Structure Initiative / Northeast Structural Genomics Consortium / NESG | ||||||
Function / homology | Function and homology information acyltransferase activity, transferring groups other than amino-acyl groups / Transferases; Acyltransferases; Transferring groups other than aminoacyl groups Similarity search - Function | ||||||
Biological species | Bacillus subtilis (bacteria) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / SAD / Resolution: 2.2 Å | ||||||
Authors | Forouhar, F. / Shen, J. / Kuzin, A. / Chiang, Y. / Xiao, R. / Acton, T.B. / Rost, B. / Montelione, G.T. / Tong, L. / Northeast Structural Genomics Consortium (NESG) | ||||||
Citation | Journal: To be Published Title: Crystal Structure of Putative Acetyltransferase (YycN) from Bacillus subtilis Authors: Forouhar, F. / Shen, J. / Kuzin, A. / Chiang, Y. / Xiao, R. / Acton, T.B. / Rost, B. / Montelione, G.T. / Tong, L. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1on0.cif.gz | 141.2 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1on0.ent.gz | 118.5 KB | Display | PDB format |
PDBx/mmJSON format | 1on0.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 1on0_validation.pdf.gz | 467.4 KB | Display | wwPDB validaton report |
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Full document | 1on0_full_validation.pdf.gz | 484.5 KB | Display | |
Data in XML | 1on0_validation.xml.gz | 29.6 KB | Display | |
Data in CIF | 1on0_validation.cif.gz | 41.6 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/on/1on0 ftp://data.pdbj.org/pub/pdb/validation_reports/on/1on0 | HTTPS FTP |
-Related structure data
Similar structure data | |
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Other databases |
-Links
-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: 18667.529 Da / Num. of mol.: 4 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Bacillus subtilis (bacteria) / Gene: YYCN / Plasmid: pET21 / Production host: Escherichia coli (E. coli) / Strain (production host): BL21 / References: UniProt: O32293 #2: Chemical | ChemComp-SO4 / #3: Chemical | ChemComp-CL / | #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: 2.5 Å3/Da / Density % sol: 50.51 % |
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Crystal grow | Temperature: 293 K / Method: vapor diffusion, hanging drop / pH: 7.5 Details: 5mM Tris, 20% PEG 8k, 0.2 M Ammonium Sulfate, 50 mM Sodium Chloride, and 5 mM DTT, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: SYNCHROTRON / Site: NSLS / Beamline: X4A / Wavelength: 0.982 Å |
Detector | Type: ADSC QUANTUM 4 / Detector: CCD / Date: Feb 3, 2003 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.982 Å / Relative weight: 1 |
Reflection | Resolution: 2.2→29.68 Å / Num. all: 76470 / Num. obs: 69770 / % possible obs: 91.5 % / Observed criterion σ(F): -3 / Observed criterion σ(I): -3 / Redundancy: 3.26 % / Biso Wilson estimate: 16.7 Å2 / Rmerge(I) obs: 0.071 / Rsym value: 0.069 / Net I/σ(I): 16.64 |
Reflection shell | Resolution: 2.2→2.28 Å / Redundancy: 2.7 % / Rmerge(I) obs: 0.354 / Mean I/σ(I) obs: 3.74 / Num. unique all: 2778 / Rsym value: 0.287 / % possible all: 99.1 |
-Processing
Software |
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Refinement | Method to determine structure: SAD / Resolution: 2.2→29.68 Å / Cross valid method: THROUGHOUT / σ(F): 2
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Displacement parameters | Biso mean: 35.8 Å2
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Refine analyze |
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Refinement step | Cycle: LAST / Resolution: 2.2→29.68 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 2.2→29.68 Å / Rfactor Rfree error: 0.003
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