+Open data
-Basic information
Entry | Database: PDB / ID: 6jdl | ||||||
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Title | Central domain of FleQ H287A mutant in complex with ATPgS and Mg | ||||||
Components | Nitrogen assimilation regulatory protein | ||||||
Keywords | TRANSCRIPTION / FleQ / Pseudomonas / AAA+ / NtrC | ||||||
Function / homology | Function and homology information positive regulation of cilium-dependent cell motility / regulation of bacterial-type flagellum-dependent cell motility / cyclic-di-GMP binding / negative regulation of extracellular matrix assembly / positive regulation of cell-substrate adhesion / DNA-binding transcription repressor activity / DNA-binding transcription activator activity / cis-regulatory region sequence-specific DNA binding / protein-DNA complex / sequence-specific DNA binding ...positive regulation of cilium-dependent cell motility / regulation of bacterial-type flagellum-dependent cell motility / cyclic-di-GMP binding / negative regulation of extracellular matrix assembly / positive regulation of cell-substrate adhesion / DNA-binding transcription repressor activity / DNA-binding transcription activator activity / cis-regulatory region sequence-specific DNA binding / protein-DNA complex / sequence-specific DNA binding / transcription cis-regulatory region binding / DNA-templated transcription / regulation of DNA-templated transcription / ATP hydrolysis activity / ATP binding Similarity search - Function | ||||||
Biological species | Pseudomonas aeruginosa (bacteria) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 2.249 Å | ||||||
Authors | Jain, D. / Banerjee, P. / Chanchal | ||||||
Funding support | India, 1items
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Citation | Journal: Acs Chem.Biol. / Year: 2019 Title: Sensor I Regulated ATPase Activity of FleQ Is Essential for Motility to Biofilm Transition inPseudomonas aeruginosa. Authors: Banerjee, P. / Chanchal / Jain, D. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 6jdl.cif.gz | 120.2 KB | Display | PDBx/mmCIF format |
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PDB format | pdb6jdl.ent.gz | 91 KB | Display | PDB format |
PDBx/mmJSON format | 6jdl.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 6jdl_validation.pdf.gz | 1.1 MB | Display | wwPDB validaton report |
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Full document | 6jdl_full_validation.pdf.gz | 1.1 MB | Display | |
Data in XML | 6jdl_validation.xml.gz | 12.4 KB | Display | |
Data in CIF | 6jdl_validation.cif.gz | 16.6 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/jd/6jdl ftp://data.pdbj.org/pub/pdb/validation_reports/jd/6jdl | HTTPS FTP |
-Related structure data
Related structure data | 6j7eC 6jdiC 5expS S: Starting model for refinement C: citing same article (ref.) |
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Similar structure data |
-Links
-Assembly
Deposited unit |
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1 |
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Unit cell |
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-Components
#1: Protein | Mass: 29532.865 Da / Num. of mol.: 1 / Fragment: Central domain / Mutation: H287A Source method: isolated from a genetically manipulated source Source: (gene. exp.) Pseudomonas aeruginosa (bacteria) Gene: ntrC_1, fleQ, ntrC_2, C8257_22345, CAZ10_06755, CGU42_27830, DZ940_07790, DZ962_01740, NCTC13719_04150, PAERUG_E15_London_28_01_14_04909, PAMH19_4438, RW109_RW109_05080 Production host: Escherichia coli (E. coli) / References: UniProt: Q51460, UniProt: G3XCV0*PLUS |
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#2: Chemical | ChemComp-AGS / |
#3: Chemical | ChemComp-MG / |
#4: Water | ChemComp-HOH / |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
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-Sample preparation
Crystal | Density Matthews: 2.33 Å3/Da / Density % sol: 47.16 % |
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Crystal grow | Temperature: 281 K / Method: vapor diffusion, hanging drop / Details: 0.2M SODIUM THIOCYANATE, 22% PEG 3350 |
-Data collection
Diffraction | Mean temperature: 100 K / Serial crystal experiment: N |
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Diffraction source | Source: SYNCHROTRON / Site: ESRF / Beamline: MASSIF-1 / Wavelength: 0.966 Å |
Detector | Type: DECTRIS PILATUS3 2M / Detector: PIXEL / Date: Jun 8, 2018 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.966 Å / Relative weight: 1 |
Reflection | Resolution: 2.249→45.5 Å / Num. obs: 13175 / % possible obs: 100 % / Redundancy: 9.5 % / Rmerge(I) obs: 0.096 / Net I/σ(I): 15 |
Reflection shell | Resolution: 2.25→2.32 Å / Rmerge(I) obs: 0.8 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: 5EXP Resolution: 2.249→45.471 Å / SU ML: 0.28 / Cross valid method: FREE R-VALUE / σ(F): 1.36 / Phase error: 24.88 / Stereochemistry target values: ML
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Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.11 Å / Solvent model: FLAT BULK SOLVENT MODEL | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.249→45.471 Å
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Refine LS restraints |
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LS refinement shell |
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Refinement TLS params. | Method: refined / Refine-ID: X-RAY DIFFRACTION
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Refinement TLS group |
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