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Yorodumi- PDB-1nz8: Solution Structure of the N-utilization substance G (NusG) N-term... -
+Open data
-Basic information
Entry | Database: PDB / ID: 1nz8 | ||||||
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Title | Solution Structure of the N-utilization substance G (NusG) N-terminal (NGN) domain from Thermus thermophilus | ||||||
Components | TRANSCRIPTION ANTITERMINATION PROTEIN NUSG | ||||||
Keywords | TRANSCRIPTION / TRANSCRIPTION ELONGATION / TERMINATION / ANTITERMINATION / RIKEN Structural Genomics/Proteomics Initiative / RSGI / Structural Genomics | ||||||
Function / homology | Function and homology information transcription elongation-coupled chromatin remodeling / regulation of DNA-templated transcription elongation / transcription antitermination / DNA-templated transcription termination / cytosol Similarity search - Function | ||||||
Biological species | Thermus thermophilus (bacteria) | ||||||
Method | SOLUTION NMR / simulated annealing, molecular dynamics, torsion angle dynamics | ||||||
Authors | Reay, P. / Yamasaki, K. / Terada, T. / Kuramitsu, S. / Shirouzu, M. / Yokoyama, S. / RIKEN Structural Genomics/Proteomics Initiative (RSGI) | ||||||
Citation | Journal: Proteins / Year: 2004 Title: Structural and sequence comparisons arising from the solution structure of the transcription elongation factor NusG from Thermus thermophilus Authors: Reay, P. / Yamasaki, K. / Terada, T. / Kuramitsu, S. / Shirouzu, M. / Yokoyama, S. | ||||||
History |
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Remark 650 | HELIX DETERMINATION METHOD: AUTHOR DETERMINED | ||||||
Remark 700 | SHEET DETERMINATION METHOD: AUTHOR DETERMINED |
-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1nz8.cif.gz | 1.1 MB | Display | PDBx/mmCIF format |
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PDB format | pdb1nz8.ent.gz | 959 KB | Display | PDB format |
PDBx/mmJSON format | 1nz8.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 1nz8_validation.pdf.gz | 346.7 KB | Display | wwPDB validaton report |
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Full document | 1nz8_full_validation.pdf.gz | 599.2 KB | Display | |
Data in XML | 1nz8_validation.xml.gz | 70.5 KB | Display | |
Data in CIF | 1nz8_validation.cif.gz | 105.6 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/nz/1nz8 ftp://data.pdbj.org/pub/pdb/validation_reports/nz/1nz8 | 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: 13316.302 Da / Num. of mol.: 1 / Fragment: N-TERMINAL (NGN) DOMAIN Source method: isolated from a genetically manipulated source Source: (gene. exp.) Thermus thermophilus (bacteria) / Gene: NusG / Plasmid: pET15b / Species (production host): Escherichia coli / Production host: Escherichia coli BL21(DE3) (bacteria) / Strain (production host): BL21 (DE3) / References: UniProt: P35872 |
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-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR | ||||||||||||||||
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NMR experiment |
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NMR details | Text: Model 31 is the minimized average structure |
-Sample preparation
Details |
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Sample conditions | Ionic strength: 50mM phosphate, 100mM KCl / pH: 6.5 / Pressure: ambient / Temperature: 318 K |
-NMR measurement
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray | |||||||||||||||
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Radiation wavelength | Relative weight: 1 | |||||||||||||||
NMR spectrometer |
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-Processing
NMR software |
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Refinement | Method: simulated annealing, molecular dynamics, torsion angle dynamics Software ordinal: 1 Details: 1356 UNAMBIGUOUS NOE DISTANCE RESTRAINTS, 90 HYDROGEN BOND RESTRAINTS, 82 HN-N DIPOLAR COUPLINGS, NO RESONANCES WERE ASSIGNED FOR MET 1, GLU 50, GLY 51, PRO 89, GLY 90, GLY 93, GLY 98 AND MET 99 | ||||||||||||||||||||
NMR representative | Selection criteria: lowest energy | ||||||||||||||||||||
NMR ensemble | Conformer selection criteria: structures with the lowest energy, NONE WITH DISTANCE VIOLATIONS > 0.2 ANGSTROMS, NONE WITH DIHEDRAL ANGLE RESTRAINT VIOLATIONS > 2 DEGREES Conformers calculated total number: 90 / Conformers submitted total number: 31 |