+Open data
-Basic information
Entry | Database: PDB / ID: 4q79 | ||||||
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Title | Structure of a HG-derivative CsgG | ||||||
Components | CsgG | ||||||
Keywords | MEMBRANE PROTEIN / beta barrel / alpha-helix / curli secretion / out membrane | ||||||
Function / homology | Curli production assembly/transport component CsgG / Curli production assembly/transport component CsgG / Prokaryotic membrane lipoprotein lipid attachment site profile. / outer membrane-bounded periplasmic space / : / Curli production assembly/transport component CsgG / CsgG Function and homology information | ||||||
Biological species | Escherichia coli Xuzhou21 (bacteria) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / SAD / Resolution: 3.1 Å | ||||||
Authors | Huang, Y. / Zhang, C.X. / Cao, B. / Zhao, Y. / Kou, Y. / Ni, D. | ||||||
Citation | Journal: Proc.Natl.Acad.Sci.USA / Year: 2014 Title: Structure of the nonameric bacterial amyloid secretion channel Authors: Cao, B. / Zhao, Y. / Kou, Y. / Ni, D. / Zhang, X.C. / Huang, Y. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 4q79.cif.gz | 336.5 KB | Display | PDBx/mmCIF format |
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PDB format | pdb4q79.ent.gz | 273 KB | Display | PDB format |
PDBx/mmJSON format | 4q79.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 4q79_validation.pdf.gz | 482.7 KB | Display | wwPDB validaton report |
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Full document | 4q79_full_validation.pdf.gz | 537.2 KB | Display | |
Data in XML | 4q79_validation.xml.gz | 40 KB | Display | |
Data in CIF | 4q79_validation.cif.gz | 58.9 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/q7/4q79 ftp://data.pdbj.org/pub/pdb/validation_reports/q7/4q79 | HTTPS FTP |
-Related structure data
-Links
-Assembly
Deposited unit |
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1 |
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Unit cell |
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-Components
#1: Protein | Mass: 30584.035 Da / Num. of mol.: 9 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Escherichia coli Xuzhou21 (bacteria) / Gene: CDCO157_1350 / Production host: Escherichia coli (E. coli) / References: UniProt: I1ZTN7, UniProt: A0A0F6C2F5*PLUS #2: Chemical | ChemComp-HG / |
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-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 2 |
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-Sample preparation
Crystal | Density Matthews: 2.89 Å3/Da / Density % sol: 57.51 % Description: THE ENTRY CONTAINS FRIEDEL PAIRS IN F_PLUS/MINUS COLUMNS. |
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Crystal grow | Temperature: 293 K / Method: vapor diffusion, hanging drop / pH: 8.5 Details: 50mM Tris-HCl (pH 8.5), 300mM MgCl2, 14% PEG2000, VAPOR DIFFUSION, HANGING DROP, temperature 293K |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: SYNCHROTRON / Site: SSRF / Beamline: BL17U / Wavelength: 1.006 Å |
Detector | Type: ADSC QUANTUM 315 / Detector: CCD / Date: Mar 13, 2014 |
Radiation | Monochromator: GRAPHITE / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.006 Å / Relative weight: 1 |
Reflection | Resolution: 3.1→50 Å / Num. obs: 66194 / % possible obs: 60 % / Observed criterion σ(F): 2 / Observed criterion σ(I): 2 |
Reflection shell | Resolution: 3.1→50 Å / % possible all: 59.2 |
-Processing
Software |
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Refinement | Method to determine structure: SAD / Resolution: 3.1→49.247 Å / SU ML: 0.44 / σ(F): 0.9 / Phase error: 42.42 / Stereochemistry target values: MLHL Details: SF FILE CONTAINS FRIEDEL PAIRS UNDER I/F_MINUS AND I/F_PLUS COLUMNS.
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Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.11 Å / Solvent model: FLAT BULK SOLVENT MODEL | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 3.1→49.247 Å
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Refine LS restraints |
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LS refinement shell | Refine-ID: X-RAY DIFFRACTION / Total num. of bins used: 24
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