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- PDB-1em8: Crystal structure of chi and psi subunit heterodimer from DNA POL III -
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Open data
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Basic information
Entry | Database: PDB / ID: 1em8 | ||||||
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Title | Crystal structure of chi and psi subunit heterodimer from DNA POL III | ||||||
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![]() | GENE REGULATION / DNA Pol III / heterodimer / clamp-loader / alpha-beta fold | ||||||
Function / homology | ![]() positive regulation of DNA-templated DNA replication initiation / DNA polymerase III, clamp loader complex / DNA polymerase III complex / replisome / 3'-5' exonuclease activity / response to radiation / DNA-templated DNA replication / DNA replication / DNA-directed DNA polymerase / DNA-directed DNA polymerase activity / DNA binding Similarity search - Function | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() | ||||||
![]() | Gulbis, J.M. / Finkelstein, J. / O'Donnell, M. / Kuriyan, J. | ||||||
![]() | ![]() Title: Crystal structure of the chi:psi sub-assembly of the Escherichia coli DNA polymerase clamp-loader complex. Authors: Gulbis, J.M. / Kazmirski, S.L. / Finkelstein, J. / Kelman, Z. / O'Donnell, M. / Kuriyan, J. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 112.6 KB | Display | ![]() |
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PDB format | ![]() | 87.7 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 450.8 KB | Display | ![]() |
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Full document | ![]() | 459.5 KB | Display | |
Data in XML | ![]() | 23.9 KB | Display | |
Data in CIF | ![]() | 33.7 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
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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Details | One biological assembly is a heterodimer constructed from chain A and chain B / One biological assembly is a heterodimer constructed from chain C and chain D |
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Components
#1: Protein | Mass: 16653.742 Da / Num. of mol.: 2 / Fragment: RESIDUES 1-147 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() #2: Protein | Mass: 12203.835 Da / Num. of mol.: 2 / Fragment: RESIDUES 26-137 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() #3: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.42 Å3/Da / Density % sol: 49.09 % | |||||||||||||||||||||||||||||||||||||||||||||||||
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Crystal grow | Temperature: 277 K / Method: vapor diffusion, hanging drop / pH: 6.8 Details: methylpentanediol, HEPES, PEG 4000, Glycerol, pH 6.8, VAPOR DIFFUSION, HANGING DROP, temperature 277K | |||||||||||||||||||||||||||||||||||||||||||||||||
Crystal grow | *PLUS Temperature: 4 K / pH: 7.5 / Method: vapor diffusion, hanging drop | |||||||||||||||||||||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() |
Detector | Type: RIGAKU / Detector: IMAGE PLATE / Date: Jan 1, 1994 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.5418 Å / Relative weight: 1 |
Reflection | Resolution: 2.1→20 Å / Num. all: 223463 / Num. obs: 218771 / % possible obs: 97.9 % / Observed criterion σ(F): 3 / Observed criterion σ(I): 3 / Redundancy: 6.8 % / Biso Wilson estimate: 24 Å2 / Rmerge(I) obs: 0.066 / Net I/σ(I): 13.2 |
Reflection shell | Resolution: 2.1→2.2 Å / Redundancy: 1 % / Rmerge(I) obs: 0.194 / Num. unique all: 4047 / % possible all: 95.2 |
Reflection | *PLUS Lowest resolution: 20 Å / Num. obs: 32326 / Num. measured all: 218771 |
Reflection shell | *PLUS % possible obs: 95.2 % |
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Processing
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Refinement | Resolution: 2.1→20 Å / σ(F): 0 / σ(I): 0 / Stereochemistry target values: Engh & Huber / Details: maximum likelihood
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Refinement step | Cycle: LAST / Resolution: 2.1→20 Å
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Refine LS restraints |
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Refinement | *PLUS Lowest resolution: 20 Å | |||||||||||||||||||||||||
Solvent computation | *PLUS | |||||||||||||||||||||||||
Displacement parameters | *PLUS | |||||||||||||||||||||||||
Refine LS restraints | *PLUS
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