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- PDB-2dwl: Crystal structure of the PriA protein complexed with oligonucleotides -
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Open data
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Basic information
Entry | Database: PDB / ID: 2dwl | ||||||
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Title | Crystal structure of the PriA protein complexed with oligonucleotides | ||||||
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![]() | HYDROLASE/DNA / ![]() | ||||||
Function / homology | ![]() DnaB-DnaC-DnaT-PriA-PriC complex / DnaB-DnaC-DnaT-PriA-PriB complex / ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() Similarity search - Function | ||||||
Biological species | ![]() ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Sasaki, K. / Ose, T. / Tanaka, T. / Masai, H. / Maenaka, K. / Kohda, D. | ||||||
![]() | ![]() Title: Structural basis of the 3'-end recognition of a leading strand in stalled replication forks by PriA. Authors: Sasaki, K. / Ose, T. / Okamoto, N. / Maenaka, K. / Tanaka, T. / Masai, H. / Saito, M. / Shirai, T. / Kohda, D. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 86.3 KB | Display | ![]() |
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PDB format | ![]() | 67.2 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Arichive directory | ![]() ![]() | HTTPS FTP |
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-Related structure data
Related structure data | ![]() 2d7eSC ![]() 2d7gC ![]() 2d7hC ![]() 2dwmC ![]() 2dwnC S: Starting model for refinement C: citing same article ( |
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Similar structure data |
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Links
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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: DNA chain | Mass: 557.431 Da / Num. of mol.: 2 / Source method: obtained synthetically #2: Protein | Mass: 11776.790 Da / Num. of mol.: 4 / Fragment: Residues 1-105 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() ![]() ![]() References: UniProt: P17888, ![]() |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 3.26 Å3/Da / Density % sol: 62.29 % | ||||||||||||||||||||
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Crystal grow![]() | Temperature: 293 K / Method: vapor diffusion, hanging drop / pH: 3.8 Details: 0.1M sodium citrate, 0.2M ammonium sulfate, pH 3.8, VAPOR DIFFUSION, HANGING DROP, temperature 293K | ||||||||||||||||||||
Components of the solutions |
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-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: RIGAKU JUPITER 210 / Detector: CCD / Date: Dec 16, 2005 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength![]() |
Reflection | Resolution: 3.2→50 Å / Num. obs: 10536 / % possible obs: 99.3 % / Redundancy: 11.1 % / Biso Wilson estimate: 102.2 Å2 / Rsym value: 0.049 / Net I/σ(I): 14.6 |
Reflection shell | Resolution: 3.2→3.31 Å / Redundancy: 11.3 % / Mean I/σ(I) obs: 4.21 / Num. unique all: 1030 / Rsym value: 0.443 / % possible all: 99.2 |
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Processing
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Refinement | Method to determine structure![]() ![]() Starting model: PDB ENTRY 2D7E Resolution: 3.2→20 Å / σ(F): 2.7
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Refine analyze |
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Refinement step | Cycle: LAST / Resolution: 3.2→20 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 3.2→3.31 Å
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