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Yorodumi- PDB-2ofq: NMR Solution Structure of a complex between the VirB9/VirB7 inter... -
+Open data
-Basic information
Entry | Database: PDB / ID: 2ofq | ||||||
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Title | NMR Solution Structure of a complex between the VirB9/VirB7 interaction domains of the pKM101 type IV secretion system | ||||||
Components |
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Keywords | PROTEIN TRANSPORT/PROTEIN TRANSPORT / TraO / TraN / pKM101 / PROTEIN TRANSPORT-PROTEIN TRANSPORT COMPLEX | ||||||
Function / homology | Function and homology information Immunoglobulin-like - #2500 / Conjugal transfer, TrbG/VirB9/CagX / VirB9/CagX/TrbG, C-terminal / VirB9/CagX/TrbG, C-terminal domain superfamily / Conjugal transfer protein / Immunoglobulin-like / Sandwich / Mainly Beta Similarity search - Domain/homology | ||||||
Biological species | IncN plasmid R46 (others) | ||||||
Method | SOLUTION NMR / simulated annealing | ||||||
Authors | Harris, R. / Bayliss, R. / Driscoll, P.C. / Waksman, G. | ||||||
Citation | Journal: Proc.Natl.Acad.Sci.Usa / Year: 2007 Title: NMR structure of a complex between the VirB9/VirB7 interaction domains of the pKM101 type IV secretion system Authors: Bayliss, R. / Harris, R. / Coutte, L. / Monier, A. / Fronzes, R. / Christie, P.J. / Driscoll, P.C. / Waksman, G. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 2ofq.cif.gz | 721.2 KB | Display | PDBx/mmCIF format |
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PDB format | pdb2ofq.ent.gz | 603.8 KB | Display | PDB format |
PDBx/mmJSON format | 2ofq.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 2ofq_validation.pdf.gz | 354 KB | Display | wwPDB validaton report |
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Full document | 2ofq_full_validation.pdf.gz | 578.6 KB | Display | |
Data in XML | 2ofq_validation.xml.gz | 34.5 KB | Display | |
Data in CIF | 2ofq_validation.cif.gz | 57.9 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/of/2ofq ftp://data.pdbj.org/pub/pdb/validation_reports/of/2ofq | HTTPS FTP |
-Related structure data
Similar structure data | |
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Other databases |
-Links
-Assembly
Deposited unit |
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1 |
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NMR ensembles |
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-Components
#1: Protein | Mass: 10950.317 Da / Num. of mol.: 1 / Fragment: residues 177-271 Source method: isolated from a genetically manipulated source Source: (gene. exp.) IncN plasmid R46 (others) / Gene: traO / Species (production host): Escherichia coli / Production host: Escherichia coli BL21(DE3) (bacteria) / Strain (production host): BL21(DE3) / References: UniProt: Q79SE3 |
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#2: Protein/peptide | Mass: 2432.657 Da / Num. of mol.: 1 / Fragment: residues 21-42 Source method: isolated from a genetically manipulated source Source: (gene. exp.) IncN plasmid R46 (others) / Gene: traN / Species (production host): Escherichia coli / Production host: Escherichia coli BL21(DE3) (bacteria) / Strain (production host): BL21(DE3) / References: UniProt: Q79SE5 |
-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: 100mM NaCl / pH: 6.7 / Pressure: ambient / Temperature: 298 K |
-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 | Name: CNS / Version: 1.1 / Developer: Brunger A. T. etall / Classification: refinement |
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Refinement | Method: simulated annealing / Software ordinal: 1 |
NMR representative | Selection criteria: lowest energy |
NMR ensemble | Conformer selection criteria: structures with the lowest energy Conformers calculated total number: 100 / Conformers submitted total number: 20 |