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- PDB-2j7j: Invariance of the zinc finger module: a comparison of the free st... -
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Open data
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Basic information
Entry | Database: PDB / ID: 2j7j | ||||||
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Title | Invariance of the zinc finger module: a comparison of the free structure with those in nucleic-acid complexes | ||||||
![]() | TRANSCRIPTION FACTOR IIIA | ||||||
![]() | TRANSCRIPTION / ZINC FINGER MODULE / ALTERNATIVE INITIATION / NUCLEAR PROTEIN / PHOSPHORYLATION / HYDROPHOBIC CORE / ZINC / RNA-BINDING / ZINC-FINGER / DNA-BINDING / TRANSCRIPTION REGULATION / POLYMORPHISM / METAL-BINDING | ||||||
Function / homology | ![]() ribosomal large subunit biogenesis / DNA binding / RNA binding / nucleus / metal ion binding Similarity search - Function | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Lu, D. / Klug, A. | ||||||
![]() | ![]() Title: Invariance of the Zinc Finger Module: A Comparison of the Free Structure with Those in Nucleic-Acid Complexes. Authors: Lu, D. / Klug, A. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 34.5 KB | Display | ![]() |
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PDB format | ![]() | 23.3 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 362 KB | Display | ![]() |
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Full document | ![]() | 362 KB | Display | |
Data in XML | ![]() | 3 KB | Display | |
Data in CIF | ![]() | 4.8 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | |
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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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Unit cell |
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Components
#1: Protein | Mass: 10056.620 Da / Num. of mol.: 1 / Fragment: ZINC FINGER 4-6, RESIDUES 127-210 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() | ||||
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#2: Chemical | #3: Chemical | ChemComp-SO4 / | #4: Water | ChemComp-HOH / | |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 3.23 Å3/Da / Density % sol: 50 % / Description: NONE |
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Crystal grow | pH: 8.5 / Details: 1.6M (NH4)2SO4, 25MM MGSO4, 50MM TRIS.HCL PH8.5 |
-Data collection
Diffraction | Mean temperature: 100 K | |||||||||||||||
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Diffraction source | Source: ![]() ![]() ![]() | |||||||||||||||
Detector | Type: ADSC CCD / Detector: CCD / Date: Feb 24, 2003 | |||||||||||||||
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray | |||||||||||||||
Radiation wavelength |
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Reflection | Resolution: 1.65→57.83 Å / Num. obs: 17038 / % possible obs: 100 % / Observed criterion σ(I): 2 / Redundancy: 9.5 % / Biso Wilson estimate: 18.03 Å2 / Rmerge(I) obs: 0.09 / Net I/σ(I): 16.2 | |||||||||||||||
Reflection shell | Resolution: 1.65→1.74 Å / Redundancy: 10 % / Rmerge(I) obs: 0.38 / Mean I/σ(I) obs: 2 / % possible all: 100 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: NONE Resolution: 1.65→44.28 Å / Cor.coef. Fo:Fc: 0.948 / Cor.coef. Fo:Fc free: 0.943 / SU B: 1.828 / SU ML: 0.06 / Cross valid method: THROUGHOUT / σ(F): 2 / ESU R: 0.094 / ESU R Free: 0.088 Stereochemistry target values: MAXIMUM LIKELIHOODWITH PHASES Details: HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS.
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Solvent computation | Ion probe radii: 0.8 Å / Shrinkage radii: 0.8 Å / VDW probe radii: 1.4 Å / Solvent model: BABINET MODEL WITH MASK | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 19.99 Å2
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Refinement step | Cycle: LAST / Resolution: 1.65→44.28 Å
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Refine LS restraints |
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