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Yorodumi- PDB-2bl8: 1.6 Angstrom crystal structure of EntA-im: a bacterial immunity p... -
+Open data
-Basic information
Entry | Database: PDB / ID: 2bl8 | ||||||
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Title | 1.6 Angstrom crystal structure of EntA-im: a bacterial immunity protein conferring immunity to the antimicrobial activity of the pediocin-like bacteriocin, enterocin A | ||||||
Components | ENTEROCINE A IMMUNITY PROTEIN | ||||||
Keywords | BACTERIAL PROTEIN / ENTEROCIN A / ORF2 PROTEIN / IMMUNITY | ||||||
Function / homology | Function and homology information | ||||||
Biological species | ENTEROCOCCUS FAECIUM (bacteria) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 1.6 Å | ||||||
Authors | Johnsen, L. / Dalhus, B. / Leiros, I. / Nissen-Meyer, J. | ||||||
Citation | Journal: J.Biol.Chem. / Year: 2005 Title: 1.6-A Crystal Structure of Enta-Im: A Bacterial Immunity Protein Conferring Immunity to the Antimicrobial Activity of the Pediocin-Like Bacteriocin Enterocin A Authors: Johnsen, L. / Dalhus, B. / Leiros, I. / Nissen-Meyer, J. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 2bl8.cif.gz | 74.5 KB | Display | PDBx/mmCIF format |
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PDB format | pdb2bl8.ent.gz | 56.3 KB | Display | PDB format |
PDBx/mmJSON format | 2bl8.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 2bl8_validation.pdf.gz | 468.7 KB | Display | wwPDB validaton report |
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Full document | 2bl8_full_validation.pdf.gz | 472.9 KB | Display | |
Data in XML | 2bl8_validation.xml.gz | 17.1 KB | Display | |
Data in CIF | 2bl8_validation.cif.gz | 24.9 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/bl/2bl8 ftp://data.pdbj.org/pub/pdb/validation_reports/bl/2bl8 | HTTPS FTP |
-Related structure data
Related structure data | 2bl7SC S: Starting model for refinement C: citing same article (ref.) |
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Similar structure data |
-Links
-Assembly
Deposited unit |
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2 |
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3 |
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Unit cell |
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Components on special symmetry positions |
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-Components
#1: Protein | Mass: 12233.946 Da / Num. of mol.: 3 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ENTEROCOCCUS FAECIUM (bacteria) / Production host: ESCHERICHIA COLI (E. coli) / References: UniProt: Q47785 #2: Chemical | #3: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
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-Sample preparation
Crystal | Density Matthews: 2.3 Å3/Da / Density % sol: 45.6 % |
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-Data collection
Diffraction | Mean temperature: 110 K |
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Diffraction source | Source: SYNCHROTRON / Site: ESRF / Beamline: BM1A / Wavelength: 0.8727 |
Detector | Type: MAR scanner 345 mm plate / Detector: IMAGE PLATE |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.8727 Å / Relative weight: 1 |
Reflection | Resolution: 1.6→50 Å / Num. obs: 38124 / % possible obs: 95.6 % / Observed criterion σ(I): 0 / Redundancy: 2.9 % / Rmerge(I) obs: 0.07 / Net I/σ(I): 10.5 |
Reflection shell | Resolution: 1.6→1.69 Å / Redundancy: 2.1 % / Rmerge(I) obs: 0.2 / Mean I/σ(I) obs: 4.4 / % possible all: 92.7 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: PDB ENTRY 2BL7 Resolution: 1.6→30 Å / Data cutoff high absF: 10000 / Cross valid method: THROUGHOUT / σ(F): 0 / Stereochemistry target values: MAXIMUM LIKELIHOOD
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Solvent computation | Bsol: 54.1432 Å2 / ksol: 0.368412 e/Å3 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 23.8 Å2
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Refine analyze |
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Refinement step | Cycle: LAST / Resolution: 1.6→30 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 1.6→1.66 Å / Total num. of bins used: 10
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Xplor file |
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