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Yorodumi- PDB-1nlf: Crystal Structure of DNA Helicase RepA in complex with sulfate at... -
+Open data
-Basic information
Entry | Database: PDB / ID: 1nlf | ||||||
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Title | Crystal Structure of DNA Helicase RepA in complex with sulfate at 1.95 A resolution | ||||||
Components | Regulatory protein repA | ||||||
Keywords | REPLICATION / replicative DNA helicase structural changes | ||||||
Function / homology | Function and homology information | ||||||
Biological species | Escherichia coli (E. coli) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 1.95 Å | ||||||
Authors | Xu, H. / Strater, N. / Schroeder, W. / Bottcher, C. / Ludwig, K. / Saenger, W. | ||||||
Citation | Journal: Acta Crystallogr.,Sect.D / Year: 2003 Title: Structure of DNA helicase RepA in complex with sulfate at 1.95 A resolution implicates structural changes to an "open" form. Authors: Xu, H. / Strater, N. / Schroder, W. / Bottcher, C. / Ludwig, K. / Saenger, W. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1nlf.cif.gz | 170.2 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1nlf.ent.gz | 134.4 KB | Display | PDB format |
PDBx/mmJSON format | 1nlf.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/nl/1nlf ftp://data.pdbj.org/pub/pdb/validation_reports/nl/1nlf | 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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Details | The second part of the biological assembly is generated by the crystallographic 2-fold rotation axes parallel to b and stacked face-to-face in a and c directions. |
-Components
#1: Protein | Mass: 29945.189 Da / Num. of mol.: 3 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Escherichia coli (E. coli) / Gene: REPA / Plasmid: pMS119EH / Production host: Escherichia coli (E. coli) / Strain (production host): pGZ18 / References: UniProt: P20356 #2: Chemical | #3: 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: 2.56 Å3/Da / Density % sol: 51.58 % | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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Crystal grow | Temperature: 291 K / Method: vapor diffusion, hanging drop / pH: 8 Details: PEG 4000, TRIS buffer, magnesium sulfate , pH 8.0, VAPOR DIFFUSION, HANGING DROP, temperature 291K | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Crystal grow | *PLUS Temperature: 277 K / pH: 5.8 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: SYNCHROTRON / Site: BESSY / Beamline: 14.2 / Wavelength: 0.83432 Å |
Detector | Type: MARRESEARCH / Detector: IMAGE PLATE / Date: May 18, 2001 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.83432 Å / Relative weight: 1 |
Reflection | Resolution: 1.95→20 Å / Num. all: 87437 / Num. obs: 72794 / % possible obs: 98.4 % / Observed criterion σ(F): 0 / Observed criterion σ(I): 0 / Redundancy: 3.3 % / Biso Wilson estimate: 21.4 Å2 / Rmerge(I) obs: 0.078 / Net I/σ(I): 9.1 |
Reflection | *PLUS Lowest resolution: 20 Å / Num. measured all: 243785 |
Reflection shell | *PLUS % possible obs: 99.6 % / Rmerge(I) obs: 0.097 / Mean I/σ(I) obs: 6.8 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT / Resolution: 1.95→20 Å / Isotropic thermal model: Isotropic / σ(F): 2 / Stereochemistry target values: Engh & Huber
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Displacement parameters | Biso mean: 21.4 Å2 | |||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 1.95→20 Å
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Refine LS restraints |
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Refinement | *PLUS Lowest resolution: 20 Å / % reflection Rfree: 5 % | |||||||||||||||||||||||||
Solvent computation | *PLUS | |||||||||||||||||||||||||
Displacement parameters | *PLUS |