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Yorodumi- PDB-1dc7: STRUCTURE OF A TRANSIENTLY PHOSPHORYLATED "SWITCH" IN BACTERIAL S... -
+Open data
-Basic information
Entry | Database: PDB / ID: 1dc7 | ||||||
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Title | STRUCTURE OF A TRANSIENTLY PHOSPHORYLATED "SWITCH" IN BACTERIAL SIGNAL TRANSDUCTION | ||||||
Components | NITROGEN REGULATION PROTEIN | ||||||
Keywords | SIGNALING PROTEIN / RECEIVER DOMAIN / PHOSPHORYLATION / SIGNAL TRANSDUCTION / CONFORMATIONAL REARRANGEMENT / TWO-COMPONENT SYSTEM | ||||||
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 / torsion angle dynamics | ||||||
Authors | Kern, D. / Volkman, B.F. / Luginbuhl, P. / Nohaile, M.J. / Kustu, S. / Wemmer, D.E. | ||||||
Citation | Journal: Nature / Year: 1999 Title: Structure of a transiently phosphorylated switch in bacterial signal transduction. Authors: Kern, D. / Volkman, B.F. / Luginbuhl, P. / Nohaile, M.J. / Kustu, S. / Wemmer, D.E. #1: Journal: Biochemistry / Year: 1995 Title: Three-Dimensional Solution Structure of the N-Terminal Receiver Domain of NTRC Authors: Volkman, B.F. / Nohaile, M.J. / Amy, N.K. / Kustu, S. / 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 | 1dc7.cif.gz | 49 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1dc7.ent.gz | 34.9 KB | Display | PDB format |
PDBx/mmJSON format | 1dc7.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 1dc7_validation.pdf.gz | 243.8 KB | Display | wwPDB validaton report |
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Full document | 1dc7_full_validation.pdf.gz | 243.6 KB | Display | |
Data in XML | 1dc7_validation.xml.gz | 5.7 KB | Display | |
Data in CIF | 1dc7_validation.cif.gz | 7 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/dc/1dc7 ftp://data.pdbj.org/pub/pdb/validation_reports/dc/1dc7 | 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 RECEIVER DOMAIN(1-124) Source method: isolated from a genetically manipulated source Source: (gene. exp.) Salmonella typhimurium (bacteria) / Species (production host): Escherichia coli / Production host: Escherichia coli BL21 (bacteria) / Strain (production host): BL21 / References: UniProt: P41789 |
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-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR | ||||||||||||||||
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NMR experiment |
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-Sample preparation
Details |
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Sample conditions | Ionic strength: 50 mM / pH: 6.75 / Pressure: 1 atm / Temperature: 298 K | ||||||||
Crystal grow | *PLUS Method: other / Details: NMR |
-NMR measurement
NMR spectrometer |
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-Processing
NMR software |
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Refinement | Method: torsion angle dynamics / Software ordinal: 1 Details: STRUCTURE BASED ON A TOTAL OF 1768 UNIQUE DISTANCE CONSTRAINTS (OBTAINED FROM 3044 NOE CROSSPEAKS), INCLUDING 355 INTRARESIDUE, 464 SHORT-RANGE, 445 MEDIUM RANGE AND 504 LONG-RANGE ...Details: STRUCTURE BASED ON A TOTAL OF 1768 UNIQUE DISTANCE CONSTRAINTS (OBTAINED FROM 3044 NOE CROSSPEAKS), INCLUDING 355 INTRARESIDUE, 464 SHORT-RANGE, 445 MEDIUM RANGE AND 504 LONG-RANGE CONSTRAINTS. DYANA 1.5 ANNEAL COMMAND (10000 STEPS) USED TO GENERATE 40 CONFORMERS. 20 LOWEST TARGET FUNCTION STRUCTURES ANALYZED. CONFORMER 4 CHOSEN FOR DEPOSITION AS CLOSEST TO MEAN COORDINATES OF THE ENSEMBLE. | ||||||||||||||||||||||||||||
NMR representative | Selection criteria: closest to the average | ||||||||||||||||||||||||||||
NMR ensemble | Conformers submitted total number: 1 |