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Yorodumi- PDB-1cr2: CRYSTAL STRUCTURE OF THE HELICASE DOMAIN OF THE GENE 4 PROTEIN OF... -
+Open data
-Basic information
Entry | Database: PDB / ID: 1cr2 | ||||||
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Title | CRYSTAL STRUCTURE OF THE HELICASE DOMAIN OF THE GENE 4 PROTEIN OF BACTERIOPHAGE T7: COMPLEX WITH DATP | ||||||
Components | DNA PRIMASE/HELICASE | ||||||
Keywords | TRANSFERASE / RECA-TYPE PROTEIN FOLD | ||||||
Function / homology | Function and homology information DNA primase activity / 5'-3' DNA helicase activity / viral DNA genome replication / DNA helicase activity / Transferases; Transferring phosphorus-containing groups; Nucleotidyltransferases / single-stranded DNA binding / DNA helicase / ATP hydrolysis activity / zinc ion binding / ATP binding / identical protein binding Similarity search - Function | ||||||
Biological species | Enterobacteria phage T7 (virus) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / Resolution: 2.3 Å | ||||||
Authors | Sawaya, M.R. / Guo, S. / Tabor, S. / Richardson, C.C. / Ellenberger, T. | ||||||
Citation | Journal: Cell(Cambridge,Mass.) / Year: 1999 Title: Crystal structure of the helicase domain from the replicative helicase-primase of bacteriophage T7. Authors: Sawaya, M.R. / Guo, S. / Tabor, S. / Richardson, C.C. / Ellenberger, T. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1cr2.cif.gz | 62.3 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1cr2.ent.gz | 44.3 KB | Display | PDB format |
PDBx/mmJSON format | 1cr2.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/cr/1cr2 ftp://data.pdbj.org/pub/pdb/validation_reports/cr/1cr2 | HTTPS FTP |
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-Related structure data
-Links
-Assembly
Deposited unit |
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1 |
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Unit cell |
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Details | The filament may be generated by applying the cyrstallographic 6 sub 1 screw symmetry. |
-Components
#1: Protein | Mass: 32831.977 Da / Num. of mol.: 1 / Fragment: HELICASE DOMAIN Source method: isolated from a genetically manipulated source Source: (gene. exp.) Enterobacteria phage T7 (virus) / Genus: T7-like viruses / Plasmid: PET17B / Production host: Escherichia coli (E. coli) References: UniProt: P03692, Transferases; Transferring phosphorus-containing groups; Nucleotidyltransferases | ||||
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#2: Chemical | #3: Chemical | ChemComp-DTP / | #4: 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: 2.42 Å3/Da / Density % sol: 49.21 % | |||||||||||||||||||||||||||||||||||
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Crystal grow | Temperature: 298 K / Method: vapor diffusion, sitting drop / pH: 9 Details: ammonium sulfate, ACES, pH 9.00, VAPOR DIFFUSION, SITTING DROP, temperature 298K | |||||||||||||||||||||||||||||||||||
Crystal grow | *PLUS pH: 7.5 | |||||||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 113 K |
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Diffraction source | Source: SYNCHROTRON / Site: NSLS / Beamline: X25 / Wavelength: 1.1 |
Detector | Type: BRANDEIS - B4 / Detector: CCD / Date: Mar 3, 1999 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.1 Å / Relative weight: 1 |
Reflection | Resolution: 2.3→20 Å / Num. all: 13072 / Num. obs: 13072 / % possible obs: 96.1 % / Observed criterion σ(F): 0 / Observed criterion σ(I): 0 / Redundancy: 11.7 % / Biso Wilson estimate: 42.4 Å2 / Rmerge(I) obs: 0.063 / Net I/σ(I): 28 |
Reflection shell | Resolution: 2.31→2.46 Å / Redundancy: 7.6 % / Rmerge(I) obs: 0.149 / Num. unique all: 2259 / % possible all: 100 |
Reflection | *PLUS Num. measured all: 153764 |
Reflection shell | *PLUS % possible obs: 100 % |
-Processing
Software |
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Refinement | Resolution: 2.3→20 Å / Cross valid method: THROUGHOUT / σ(F): 0 / σ(I): 0 / Stereochemistry target values: ENGH & HUBER
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Refinement step | Cycle: LAST / Resolution: 2.3→20 Å
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Refine LS restraints |
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Software | *PLUS Name: X-PLOR / Version: 3.851 / Classification: refinement | |||||||||||||||||||||||||
Refinement | *PLUS Rfactor Rwork: 0.247 | |||||||||||||||||||||||||
Solvent computation | *PLUS | |||||||||||||||||||||||||
Displacement parameters | *PLUS |