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- PDB-2iie: single chain Integration Host Factor protein (scIHF2) in complex ... -
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Open data
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Basic information
Entry | Database: PDB / ID: 2iie | ||||||
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Title | single chain Integration Host Factor protein (scIHF2) in complex with DNA | ||||||
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![]() | RECOMBINATION/DNA / DNA kinking / bending / U-turn / intercalation / divalent / RECOMBINATION-DNA COMPLEX | ||||||
Function / homology | ![]() IHF-DNA complex / DNA-binding transcription activator activity / protein-DNA complex / structural constituent of chromatin / regulation of translation / chromosome / DNA recombination / transcription cis-regulatory region binding / DNA-templated transcription / regulation of DNA-templated transcription ...IHF-DNA complex / DNA-binding transcription activator activity / protein-DNA complex / structural constituent of chromatin / regulation of translation / chromosome / DNA recombination / transcription cis-regulatory region binding / DNA-templated transcription / regulation of DNA-templated transcription / DNA binding / cytosol Similarity search - Function | ||||||
Biological species | ![]() ![]() synthetic construct (others) | ||||||
Method | ![]() ![]() | ||||||
![]() | Bao, Q. / Droege, P. / Davey, C.A. | ||||||
![]() | ![]() Title: A Divalent Metal-mediated Switch Controlling Protein-induced DNA Bending Authors: Bao, Q. / Chen, H. / Liu, Y. / Yan, J. / Droge, P. / Davey, C.A. #1: Journal: Nucleic Acids Res. / Year: 2003 Title: Activation of site-specific DNA integration in human cells by a single chain integration host factor Authors: Corona, T. / Bao, Q. / Christ, N. / Schwartz, T. / Li, J. / Droege, P. #2: Journal: Gene / Year: 2004 Title: Single-chain integration host factors as probes for high-precision nucleoprotein complex formation Authors: Bao, Q. / Christ, N. / Droege, P. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 102.5 KB | Display | ![]() |
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PDB format | ![]() | 72 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Arichive directory | ![]() ![]() | HTTPS FTP |
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-Related structure data
Related structure data | ![]() 2iifC ![]() 1ihfS 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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Unit cell |
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Components
-DNA chain , 3 types, 3 molecules CDE
#1: DNA chain | Mass: 10801.969 Da / Num. of mol.: 1 / Source method: obtained synthetically / Details: chemically synthesized / Source: (synth.) synthetic construct (others) |
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#2: DNA chain | Mass: 4611.039 Da / Num. of mol.: 1 / Source method: obtained synthetically / Details: chemically synthesized / Source: (synth.) synthetic construct (others) |
#3: DNA chain | Mass: 6074.938 Da / Num. of mol.: 1 / Source method: obtained synthetically / Details: chemically synthesized / Source: (synth.) synthetic construct (others) |
-Protein , 1 types, 1 molecules A
#4: Protein | Mass: 22884.883 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() |
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-Non-polymers , 2 types, 282 molecules ![](data/chem/img/MN.gif)
![](data/chem/img/HOH.gif)
![](data/chem/img/HOH.gif)
#5: Chemical | ChemComp-MN / #6: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.63 Å3/Da / Density % sol: 52.15 % | ||||||||||||||||||||||||||||||||||||||||||||
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Crystal grow | Temperature: 291 K / Method: vapor diffusion, hanging drop / pH: 7.5 Details: 1:1 mix water/ well solution containing:50mM Tris (pH 7.5), 15% PEG5000-MME, 10% glycerol, 50mM NaCl, 30mM MnCl2, VAPOR DIFFUSION, HANGING DROP, temperature 291K | ||||||||||||||||||||||||||||||||||||||||||||
Components of the solutions |
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-Data collection
Diffraction | Mean temperature: 103 K |
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Diffraction source | Source: ![]() |
Detector | Type: RIGAKU RAXIS IV / Detector: IMAGE PLATE / Date: Apr 20, 2005 |
Radiation | Monochromator: graphite / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.542 Å / Relative weight: 1 |
Reflection | Resolution: 2.41→44.5 Å / Num. all: 18784 / Num. obs: 18596 / % possible obs: 99 % / Observed criterion σ(F): 0 / Observed criterion σ(I): 0 |
Reflection shell | Resolution: 2.41→2.54 Å / % possible all: 94.5 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: PDB entry 1IHF Resolution: 2.41→40 Å / Cross valid method: THROUGHOUT / σ(F): 0 / Stereochemistry target values: Engh & Huber
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Solvent computation | Bsol: 46.045 Å2 | |||||||||||||||||||||||||
Displacement parameters | Biso mean: 48.939 Å2 | |||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.41→40 Å
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Refine LS restraints |
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Xplor file |
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