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Yorodumi- PDB-2jwl: Solution Structure of periplasmic domain of TolR from H. influenz... -
+Open data
-Basic information
Entry | Database: PDB / ID: 2jwl | ||||||
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Title | Solution Structure of periplasmic domain of TolR from H. influenzae with SAXS data | ||||||
Components | Protein tolR | ||||||
Keywords | MEMBRANE PROTEIN / PROTEIN / Periplasmic domain / membrane / Inner membrane / Protein transport / Transmembrane / Transport | ||||||
Function / homology | Function and homology information transmembrane transporter activity / protein transport / cell cycle / cell division / plasma membrane Similarity search - Function | ||||||
Biological species | Haemophilus influenzae (bacteria) | ||||||
Method | SOLUTION NMR / simulated annealing | ||||||
Authors | Parsons, L.M. / Bax, A. / Grishaev, A. | ||||||
Citation | Journal: Biochemistry / Year: 2008 Title: The Periplasmic Domain of TolR from Haemophilus influenzae Forms a Dimer with a Large Hydrophobic Groove: NMR Solution Structure and Comparison to SAXS Data. Authors: Parsons, L.M. / Grishaev, A. / Bax, A. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 2jwl.cif.gz | 876.2 KB | Display | PDBx/mmCIF format |
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PDB format | pdb2jwl.ent.gz | 743 KB | Display | PDB format |
PDBx/mmJSON format | 2jwl.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 2jwl_validation.pdf.gz | 348.8 KB | Display | wwPDB validaton report |
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Full document | 2jwl_full_validation.pdf.gz | 577.6 KB | Display | |
Data in XML | 2jwl_validation.xml.gz | 51.8 KB | Display | |
Data in CIF | 2jwl_validation.cif.gz | 78.3 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/jw/2jwl ftp://data.pdbj.org/pub/pdb/validation_reports/jw/2jwl | HTTPS FTP |
-Related structure data
Related structure data | 2jwkC C: citing same article (ref.) |
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Similar structure data | |
Other databases |
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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: 8006.144 Da / Num. of mol.: 2 / Fragment: periplasmic domain Source method: isolated from a genetically manipulated source Source: (gene. exp.) Haemophilus influenzae (bacteria) Description: the vector was modified to include a native E.coli GST-tag. Gene: tolR / Plasmid: pet28 / Production host: Escherichia coli (E. coli) / Strain (production host): BL21-star-(DE3) / References: UniProt: P43769 |
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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: 0.5-1.0 mM [U-99% 13C; U-99% 15N] TolR, 50 mM sodium phosphate, 50-100 mM sodium chloride, 0.05 mM EDTA, 93% H2O/7% D2O Solvent system: 93% H2O/7% D2O | ||||||||||||||||||||||||
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Sample |
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Sample conditions | pH: 6.7 / Pressure: ambient / Temperature: 303 K |
-NMR measurement
NMR spectrometer | Type: Bruker DRX / Manufacturer: Bruker / Model: DRX / 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: closest to the average | ||||||||||||||||||||||||
NMR ensemble | Conformer selection criteria: all calculated structures submitted Conformers calculated total number: 20 / Conformers submitted total number: 20 |