+Open data
-Basic information
Entry | Database: PDB / ID: 2kng | ||||||
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Title | Solution structure of C-domain of Lsr2 | ||||||
Components | Protein lsr2 | ||||||
Keywords | DNA BINDING PROTEIN / DNA-binding domain / Immune response | ||||||
Function / homology | Function and homology information DNA protection / cellular response to oxygen levels / nucleoid / response to iron ion / acyltransferase activity / peptidoglycan-based cell wall / response to hydrogen peroxide / regulation of DNA-templated transcription / DNA binding / plasma membrane ...DNA protection / cellular response to oxygen levels / nucleoid / response to iron ion / acyltransferase activity / peptidoglycan-based cell wall / response to hydrogen peroxide / regulation of DNA-templated transcription / DNA binding / plasma membrane / cytosol / cytoplasm Similarity search - Function | ||||||
Biological species | Mycobacterium tuberculosis (bacteria) | ||||||
Method | SOLUTION NMR / simulated annealing | ||||||
Model details | lowest energy, model 1 | ||||||
Authors | Li, Y. / Xia, B. | ||||||
Citation | Journal: Proc.Natl.Acad.Sci.USA / Year: 2010 Title: Lsr2 is a nucleoid-associated protein that targets AT-rich sequences and virulence genes in Mycobacterium tuberculosis Authors: Gordon, B.R. / Li, Y. / Wang, L. / Sintsova, A. / van Bakel, H. / Tian, S. / Navarre, W.W. / Xia, B. / Liu, J. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 2kng.cif.gz | 333.4 KB | Display | PDBx/mmCIF format |
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PDB format | pdb2kng.ent.gz | 280 KB | Display | PDB format |
PDBx/mmJSON format | 2kng.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 2kng_validation.pdf.gz | 343.2 KB | Display | wwPDB validaton report |
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Full document | 2kng_full_validation.pdf.gz | 428 KB | Display | |
Data in XML | 2kng_validation.xml.gz | 15.7 KB | Display | |
Data in CIF | 2kng_validation.cif.gz | 27.7 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/kn/2kng ftp://data.pdbj.org/pub/pdb/validation_reports/kn/2kng | HTTPS FTP |
-Related structure data
Similar structure data |
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-Links
-Assembly
Deposited unit |
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1 |
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NMR ensembles |
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-Components
#1: Protein | Mass: 6141.680 Da / Num. of mol.: 1 / Fragment: UNP residues 66-112 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Mycobacterium tuberculosis (bacteria) / Gene: lsr2 / Plasmid: pET21d / Production host: Escherichia coli (E. coli) / References: UniProt: P65648, UniProt: P9WIP7*PLUS |
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-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR | ||||||||||||||||||||||||||||||||
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NMR experiment |
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-Sample preparation
Details | Contents: 0.8mM [U-13C; U-15N] Lsr2C-1, 90% H2O/10% D2O / Solvent system: 90% H2O/10% D2O |
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Sample | Conc.: 0.8 mM / Component: Lsr2C-1 / Isotopic labeling: [U-13C; U-15N] |
Sample conditions | Ionic strength: 100 / pH: 6 / Pressure: ambient / Temperature: 298 K |
-NMR measurement
NMR spectrometer | Type: Bruker Avance / Manufacturer: Bruker / Model: AVANCE / Field strength: 500 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: 100 / Conformers submitted total number: 20 / Representative conformer: 1 |