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Open data
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Basic information
Entry | Database: PDB / ID: 2k1n | ||||||
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Title | DNA bound structure of the N-terminal domain of AbrB | ||||||
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![]() | TRANSCRIPTION/DNA / AbrB / abrB8 / DNA bound / Transition State Regulator / DNA binding protein / Activator / DNA-binding / Repressor / Sporulation / Transcription / Transcription regulation / TRANSCRIPTION-DNA COMPLEX | ||||||
Function / homology | ![]() regulation of sporulation / sporulation resulting in formation of a cellular spore / negative regulation of DNA-templated transcription / DNA binding / identical protein binding Similarity search - Function | ||||||
Biological species | ![]() ![]() Synthetic Construct (others) | ||||||
Method | SOLUTION NMR / simulated annealing | ||||||
Model details | N-terminal domain of the Transition State Regulator AbrB bound to a DNA target (abrB8) | ||||||
![]() | Cavanagh, J. / Bobay, B.G. / Sullivan, D.M. / Thompson, R.J. | ||||||
![]() | ![]() Title: Insights into the Nature of DNA Binding of AbrB-like Transcription Factors Authors: Sullivan, D.M. / Bobay, B.G. / Kojetin, D.J. / Thompson, R.J. / Rance, M. / Strauch, M.A. / Cavanagh, 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 | ![]() | 1.1 MB | Display | ![]() |
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PDB format | ![]() | 991.5 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 386.8 KB | Display | ![]() |
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Full document | ![]() | 688.9 KB | Display | |
Data in XML | ![]() | 50.5 KB | Display | |
Data in CIF | ![]() | 73.9 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
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Links
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Assembly
Deposited unit | ![]()
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NMR ensembles |
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Components
#1: DNA chain | Mass: 7696.008 Da / Num. of mol.: 1 / Mutation: A10G / Source method: obtained synthetically / Source: (synth.) Synthetic Construct (others) |
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#2: DNA chain | Mass: 7655.984 Da / Num. of mol.: 1 / Mutation: A10G / Source method: obtained synthetically / Source: (synth.) Synthetic Construct (others) |
#3: Protein | Mass: 6342.559 Da / Num. of mol.: 4 / Fragment: sequence database residues 3-57 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() Gene: B4122_4520, B4417_1778, DFO69_4335, FAL52_19720, SC09_Contig28orf00381 Production host: ![]() ![]() |
-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR Details: N-terminal domain of the Transition State Regulator AbrB bound to a DNA target (abrB8) |
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NMR experiment | Type: 2D 1H-15N ![]() |
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Sample preparation
Details | Contents: 0.5 mM [U-99% 15N] AbrBN55, 90% H2O/10% D2O / Solvent system: 90% H2O/10% D2O |
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Sample | Conc.: 0.5 mM / Component: AbrBN55 / Isotopic labeling: [U-99% 15N] |
Sample conditions | Ionic strength: 10 / pH: 5.5 / Pressure: ambient / Temperature: 305 K |
-NMR measurement
NMR spectrometer | Type: Varian INOVA / Manufacturer: Varian / Model: INOVA / Field strength: 600 MHz |
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Processing
NMR software |
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Refinement | Method: simulated annealing / Software ordinal: 1 | ||||||||||||||||
NMR representative | Selection criteria: lowest energy | ||||||||||||||||
NMR ensemble | Conformer selection criteria: structures with the lowest energy Conformers calculated total number: 200 / Conformers submitted total number: 10 |