+Open data
-Basic information
Entry | Database: PDB / ID: 5ujq | ||||||
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Title | NMR Solution Structure of the Two-component Bacteriocin CbnXY | ||||||
Components | Bacteriocin | ||||||
Keywords | ANTIMICROBIAL PROTEIN | ||||||
Function / homology | membrane => GO:0016020 / Bacteriocin Function and homology information | ||||||
Biological species | Carnobacterium maltaromaticum (bacteria) | ||||||
Method | SOLUTION NMR / simulated annealing | ||||||
Authors | Acedo, J.Z. / Towle, K.M. / Lohans, C.T. / McKay, R.T. / Miskolzie, M. / Doerksen, T. / Vederas, J.C. / Martin-Visscher, L.A. | ||||||
Citation | Journal: FEBS Lett. / Year: 2017 Title: Identification and three-dimensional structure of carnobacteriocin XY, a class IIb bacteriocin produced by Carnobacteria. Authors: Acedo, J.Z. / Towle, K.M. / Lohans, C.T. / Miskolzie, M. / McKay, R.T. / Doerksen, T.A. / Vederas, J.C. / Martin-Visscher, L.A. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 5ujq.cif.gz | 206.5 KB | Display | PDBx/mmCIF format |
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PDB format | pdb5ujq.ent.gz | 175.1 KB | Display | PDB format |
PDBx/mmJSON format | 5ujq.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 5ujq_validation.pdf.gz | 420 KB | Display | wwPDB validaton report |
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Full document | 5ujq_full_validation.pdf.gz | 524.1 KB | Display | |
Data in XML | 5ujq_validation.xml.gz | 11.1 KB | Display | |
Data in CIF | 5ujq_validation.cif.gz | 16.9 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/uj/5ujq ftp://data.pdbj.org/pub/pdb/validation_reports/uj/5ujq | HTTPS FTP |
-Related structure data
Related structure data | 5ujrC C: citing same article (ref.) |
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Similar structure data | |
Other databases |
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-Links
-Assembly
Deposited unit |
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1 |
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NMR ensembles |
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-Components
#1: Protein/peptide | Mass: 3098.687 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Carnobacterium maltaromaticum (bacteria) Production host: Escherichia coli BL21(DE3) (bacteria) / References: UniProt: Q46312 |
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-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR | ||||||||||||||||||||||||||||||||||||||||||||||||
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NMR experiment |
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-Sample preparation
Details | Type: solution Contents: 1 mM [U-99% 13C; U-99% 15N] CbnY, 50 % D trifluoroethanol, 50 % water, 0.01 % DSS, trifluoroethanol/water Label: CbnY / Solvent system: trifluoroethanol/water | ||||||||||||||||||||
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Sample |
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Sample conditions | Ionic strength: 0 Not defined / Label: conditions_1 / pH: 6 / Pressure: 760 mmHg / Temperature: 300 K |
-NMR measurement
NMR spectrometer | Type: Varian VNMRS / Manufacturer: Varian / Model: VNMRS / Field strength: 700 MHz |
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-Processing
NMR software |
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Refinement | Method: simulated annealing / Software ordinal: 4 | |||||||||||||||
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 |