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Yorodumi- PDB-1j56: MINIMIZED AVERAGE STRUCTURE OF BERYLLOFLUORIDE-ACTIVATED NTRC REC... -
+Open data
-Basic information
Entry | Database: PDB / ID: 1j56 | ||||||
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Title | MINIMIZED AVERAGE STRUCTURE OF BERYLLOFLUORIDE-ACTIVATED NTRC RECEIVER DOMAIN: MODEL STRUCTURE INCORPORATING ACTIVE SITE CONTACTS | ||||||
Components | NITROGEN REGULATION PROTEIN NR(I) | ||||||
Keywords | SIGNALING PROTEIN / two component signal transduction / receiver domain / BeF3 / phosphorylation / Bacterial nitrogen regulatory protein | ||||||
Function / homology | Function and homology information regulation of nitrogen utilization / nitrogen fixation / phosphorelay response regulator activity / sequence-specific DNA binding / regulation of DNA-templated transcription / ATP hydrolysis activity / ATP binding / cytoplasm Similarity search - Function | ||||||
Biological species | Salmonella typhimurium (bacteria) | ||||||
Method | SOLUTION NMR / distance geometry, torsion angle dynamics, simulated annealing, ENERGY MINIMIZATION | ||||||
Model type details | minimized average | ||||||
Authors | Hastings, C.A. / Lee, S.-Y. / Cho, H.S. / Yan, D. / Kustu, S. / Wemmer, D.E. | ||||||
Citation | Journal: Biochemistry / Year: 2003 Title: High-Resolution Solution Structure of the Beryllofluoride-Activated NtrC Receiver Domain Authors: Hastings, C.A. / Lee, S.-Y. / Cho, H.S. / Yan, D. / Kustu, S. / Wemmer, D.E. #1: Journal: J.Mol.Biol. / Year: 2000 Title: NMR STRUCTURE OF ACTIVATED CHEY Authors: Cho, H.S. / Lee, S.-Y. / Yan, D. / Pan, X. / Parkinson, J.S. / Kustu, S. / Wemmer, D.E. / Pelton, J.G. #2: Journal: Nat.Struct.Biol. / Year: 2001 Title: CRYSTAL STRUCTURE OF AN ACTIVATED RESPONSE REGULATOR BOUND TO ITS TARGET Authors: Lee, S.-Y. / Cho, H.S. / Pelton, J.G. / Yan, D. / Henderson, R.K. / King, D.S. / Huang, L. / Kustu, S. / Berry, E.A. / Wemmer, D.E. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1j56.cif.gz | 50.9 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1j56.ent.gz | 35.6 KB | Display | PDB format |
PDBx/mmJSON format | 1j56.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 1j56_validation.pdf.gz | 311.5 KB | Display | wwPDB validaton report |
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Full document | 1j56_full_validation.pdf.gz | 311.3 KB | Display | |
Data in XML | 1j56_validation.xml.gz | 5.1 KB | Display | |
Data in CIF | 1j56_validation.cif.gz | 6.3 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/j5/1j56 ftp://data.pdbj.org/pub/pdb/validation_reports/j5/1j56 | HTTPS FTP |
-Related structure data
-Links
-Assembly
Deposited unit |
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1 |
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NMR ensembles |
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-Components
#1: Protein | Mass: 13636.604 Da / Num. of mol.: 1 Fragment: N-terminal domain: Receiver domain, Residues 1-124 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Salmonella typhimurium (bacteria) / Plasmid: pET21 / Species (production host): Escherichia coli / Production host: Escherichia coli BL21 (bacteria) / Strain (production host): BL21 / References: UniProt: P41789 |
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#2: Chemical | ChemComp-BEF / |
-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR | ||||||||||||||||||||||||||||||||||||||||
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NMR experiment |
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NMR details | Text: MINIMIZED AVERAGE STRUCTURE OF BERYLLOFLUORIDE-ACTIVATED NTRC RECEIVER DOMAIN: MODEL STRUCTURE INCORPORATING ACTIVE 3 SITE CONTACTS. |
-Sample preparation
Details |
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Sample conditions |
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Crystal grow | *PLUS Method: other / Details: NMR |
-NMR measurement
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M | |||||||||||||||
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Radiation wavelength | Relative weight: 1 | |||||||||||||||
NMR spectrometer |
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-Processing
NMR software |
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Refinement | Method: distance geometry, torsion angle dynamics, simulated annealing, ENERGY MINIMIZATION Software ordinal: 1 Details: 3 additional constraints from crystal structure of BeF3-activated CheY were used for structure calculation. | ||||||||||||||||||||||||||||
NMR representative | Selection criteria: minimized average structure | ||||||||||||||||||||||||||||
NMR ensemble | Conformers submitted total number: 1 |