+Open data
-Basic information
Entry | Database: PDB / ID: 3pjr | ||||||
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Title | HELICASE SUBSTRATE COMPLEX | ||||||
Components |
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Keywords | HYDROLASE/DNA / HELICASE / HYDROLASE-DNA COMPLEX | ||||||
Function / homology | Function and homology information DNA helicase complex / DNA 3'-5' helicase / recombinational repair / DNA unwinding involved in DNA replication / 3'-5' DNA helicase activity / isomerase activity / ATP hydrolysis activity / DNA binding / ATP binding / cytosol Similarity search - Function | ||||||
Biological species | Geobacillus stearothermophilus (bacteria) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 3.3 Å | ||||||
Authors | Velankar, S.S. / Soultanas, P. / Dillingham, M.S. / Subramanya, H.S. / Wigley, D.B. | ||||||
Citation | Journal: Cell(Cambridge,Mass.) / Year: 1999 Title: Crystal structures of complexes of PcrA DNA helicase with a DNA substrate indicate an inchworm mechanism Authors: Velankar, S.S. / Soultanas, P. / Dillingham, M.S. / Subramanya, H.S. / Wigley, D.B. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 3pjr.cif.gz | 162.3 KB | Display | PDBx/mmCIF format |
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PDB format | pdb3pjr.ent.gz | 124.4 KB | Display | PDB format |
PDBx/mmJSON format | 3pjr.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 3pjr_validation.pdf.gz | 482.6 KB | Display | wwPDB validaton report |
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Full document | 3pjr_full_validation.pdf.gz | 568.2 KB | Display | |
Data in XML | 3pjr_validation.xml.gz | 25.9 KB | Display | |
Data in CIF | 3pjr_validation.cif.gz | 37 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/pj/3pjr ftp://data.pdbj.org/pub/pdb/validation_reports/pj/3pjr | HTTPS FTP |
-Related structure data
-Links
-Assembly
Deposited unit |
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1 |
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Unit cell |
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-Components
#1: DNA chain | Mass: 4581.967 Da / Num. of mol.: 1 / Source method: obtained synthetically |
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#2: DNA chain | Mass: 3029.994 Da / Num. of mol.: 1 / Source method: obtained synthetically |
#3: Protein | Mass: 82595.102 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Geobacillus stearothermophilus (bacteria) Production host: Escherichia coli (E. coli) References: UniProt: P56255, Hydrolases; Acting on acid anhydrides; In phosphorus-containing anhydrides |
#4: Chemical | ChemComp-ATP / |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
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-Sample preparation
Crystal | Density Matthews: 3.36 Å3/Da / Density % sol: 63.34 % | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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Crystal grow | pH: 8.5 / Details: pH 8.5 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Crystal grow | *PLUS pH: 7.5 / Method: vapor diffusion, hanging drop / Details: used to seeding | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 295 K |
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Diffraction source | Source: SYNCHROTRON / Site: EMBL/DESY, HAMBURG / Beamline: X11 / Wavelength: 0.9 |
Detector | Detector: AREA DETECTOR |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.9 Å / Relative weight: 1 |
Reflection | Resolution: 3.3→10 Å / Num. all: 17365 / Num. obs: 17365 / % possible obs: 92 % / Observed criterion σ(I): 0 / Redundancy: 2.5 % / Rmerge(I) obs: 0.06 |
Reflection | *PLUS % possible obs: 92 % / Rmerge(I) obs: 0.06 |
-Processing
Software | Name: REFMAC / Classification: refinement | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT / Resolution: 3.3→10 Å / Cross valid method: THROUGHOUT / σ(F): 0
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Refinement step | Cycle: LAST / Resolution: 3.3→10 Å
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Refine LS restraints |
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Refinement | *PLUS Highest resolution: 3.3 Å / Lowest resolution: 10 Å / σ(F): 0 / % reflection Rfree: 5 % / Rfactor obs: 0.236 | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Solvent computation | *PLUS | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | *PLUS |