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Yorodumi- PDB-1qpm: NMR STRUCTURE OF THE MU BACTERIOPHAGE REPRESSOR DNA-BINDING DOMAIN -
+Open data
-Basic information
Entry | Database: PDB / ID: 1qpm | ||||||
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Title | NMR STRUCTURE OF THE MU BACTERIOPHAGE REPRESSOR DNA-BINDING DOMAIN | ||||||
Components | PROTEIN (MU BACTERIOPHAGE C REPRESSOR PROTEIN) | ||||||
Keywords | VIRAL PROTEIN / HELIX-TURN-HELIX / MU BACTERIOPHAGE / REPRESSOR | ||||||
Function / homology | Function and homology information viral latency / latency-replication decision / transcription repressor complex / host cell cytoplasm / DNA binding Similarity search - Function | ||||||
Biological species | Enterobacteria phage Mu (virus) | ||||||
Method | SOLUTION NMR / DISTANCE GEOMETRY SIMULATED ANNEALING | ||||||
Model type details | minimized average | ||||||
Authors | Ilangovan, U. / Wojciak, J.M. / Connolly, K.M. / Clubb, R.T. | ||||||
Citation | Journal: Biochemistry / Year: 1999 Title: NMR structure and functional studies of the Mu repressor DNA-binding domain. Authors: Ilangovan, U. / Wojciak, J.M. / Connolly, K.M. / Clubb, R.T. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1qpm.cif.gz | 533.4 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1qpm.ent.gz | 447.4 KB | Display | PDB format |
PDBx/mmJSON format | 1qpm.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 1qpm_validation.pdf.gz | 342.7 KB | Display | wwPDB validaton report |
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Full document | 1qpm_full_validation.pdf.gz | 484.6 KB | Display | |
Data in XML | 1qpm_validation.xml.gz | 29.4 KB | Display | |
Data in CIF | 1qpm_validation.cif.gz | 48.9 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/qp/1qpm ftp://data.pdbj.org/pub/pdb/validation_reports/qp/1qpm | HTTPS FTP |
-Related structure data
Similar structure data |
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-Links
-Assembly
Deposited unit |
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NMR ensembles |
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-Components
#1: Protein | Mass: 7543.704 Da / Num. of mol.: 1 / Fragment: DNA-BINDING DOMAIN Source method: isolated from a genetically manipulated source Source: (gene. exp.) Enterobacteria phage Mu (virus) / Genus: Mu-like viruses / Plasmid: PET11A / Production host: Escherichia coli (E. coli) / References: UniProt: P06019 |
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-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR |
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NMR experiment | Type: SEE PRIMARY REFERENCE |
NMR details | Text: THE STRUCTURE WAS DETERMINED USING HETERONUCLEAR NMR METHODS. COMPLETE INFORMATION IN PRIMARY REFERENCE. |
-Sample preparation
Details | Contents: 1MM REPRESSOR U-15N,13C 50MM PHOSPHATE (PH 6.2); 100MM NACL; 2.5MM D-DTT; 93% H2O, 7% D2O |
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Sample conditions | Ionic strength: 100mM NACL / pH: 6.2 / Pressure: AMBIENT / Temperature: 300.0 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: DISTANCE GEOMETRY SIMULATED ANNEALING / Software ordinal: 1 / Details: INFORMATION IN PRIMARY REFERENCE | |||||||||
NMR representative | Selection criteria: minimized average structure | |||||||||
NMR ensemble | Conformer selection criteria: STRUCTURES WITH ACCEPTABLE COVALENT GEOMETRY,STRUCTURES WITH FAVORABLE NON- BOND ENERGY,STRUCTURES WITH THE LEAST RESTRAINT VIOLATIONS,STRUCTURES WITH THE LOWEST ENERGY Conformers calculated total number: 50 / Conformers submitted total number: 26 |