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Yorodumi- PDB-2bl7: 1.6 Angstrom crystal structure of EntA-im: a bacterial immunity p... -
+Open data
-Basic information
Entry | Database: PDB / ID: 2bl7 | ||||||
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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 | IMMUNE SYSTEM / ENTEROCIN A / ORF2 PROTEIN / IMMUNITY / BACTERIAL PROTEIN | ||||||
Function / homology | Ta0600-like / Ta0600-like superfamily / Lactococcin-A immunity protein-like / Enterocin A Immunity / bacteriocin immunity / de novo design (two linked rop proteins) / Up-down Bundle / Mainly Alpha / Bacteriocin immunity protein Function and homology information | ||||||
Biological species | ENTEROCOCCUS FAECIUM (bacteria) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / SAD / Resolution: 2.2 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 | 2bl7.cif.gz | 26.1 KB | Display | PDBx/mmCIF format |
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PDB format | pdb2bl7.ent.gz | 19.3 KB | Display | PDB format |
PDBx/mmJSON format | 2bl7.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/bl/2bl7 ftp://data.pdbj.org/pub/pdb/validation_reports/bl/2bl7 | HTTPS FTP |
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-Related structure data
-Links
-Assembly
Deposited unit |
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1 |
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Unit cell |
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Components on special symmetry positions |
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-Components
#1: Protein | Mass: 12410.708 Da / Num. of mol.: 1 / Mutation: YES Source method: isolated from a genetically manipulated source Source: (gene. exp.) ENTEROCOCCUS FAECIUM (bacteria) / Production host: ESCHERICHIA COLI (E. coli) / References: UniProt: Q47785 |
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#2: Water | ChemComp-HOH / |
Compound details | ENGINEERED |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
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-Sample preparation
Crystal | Density Matthews: 2.7 Å3/Da / Density % sol: 54 % |
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-Data collection
Diffraction | Mean temperature: 110 K |
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Diffraction source | Source: SYNCHROTRON / Site: ESRF / Beamline: ID29 / Wavelength: 0.9792 |
Detector | Type: ADSC CCD / Detector: CCD |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.9792 Å / Relative weight: 1 |
Reflection | Resolution: 2.2→30 Å / Num. obs: 6364 / % possible obs: 99.8 % / Observed criterion σ(I): 0 / Redundancy: 8.6 % / Rmerge(I) obs: 0.11 / Net I/σ(I): 16.5 |
Reflection shell | Resolution: 2.2→2.32 Å / Redundancy: 4.2 % / Rmerge(I) obs: 0.4 / Mean I/σ(I) obs: 2.2 / % possible all: 98.8 |
-Processing
Software |
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Refinement | Method to determine structure: SAD / Resolution: 2.2→50 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: 54.9115 Å2 / ksol: 0.378692 e/Å3 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 34.9 Å2
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Refine analyze |
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Refinement step | Cycle: LAST / Resolution: 2.2→50 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 2.2→2.28 Å / Total num. of bins used: 10
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Xplor file |
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