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- PDB-1x6y: Structure 6: room temperature crystal structure of the truncated ... -
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Open data
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Basic information
Entry | Database: PDB / ID: 1x6y | ||||||
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Title | Structure 6: room temperature crystal structure of the truncated pak pilin from Pseudomonas aeruginosa at 1.80A resolution | ||||||
![]() | Fimbrial protein | ||||||
![]() | STRUCTURAL PROTEIN / TYPE IV PILIN / LECTIN / ADHESIN | ||||||
Function / homology | ![]() | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() | ||||||
![]() | Dunlop, K.V. / Irvin, R.T. / Hazes, B. | ||||||
![]() | ![]() Title: Pros and cons of cryocrystallography: should we also collect a room-temperature data set? Authors: Dunlop, K.V. / Irvin, R.T. / Hazes, B. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 38.7 KB | Display | ![]() |
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PDB format | ![]() | 25.9 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 413.2 KB | Display | ![]() |
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Full document | ![]() | 413.2 KB | Display | |
Data in XML | ![]() | 8.1 KB | Display | |
Data in CIF | ![]() | 11.1 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 1x6pC ![]() 1x6qC ![]() 1x6rC ![]() 1x6xC ![]() 1x6zC ![]() 1dzoS S: Starting model for refinement C: citing same article ( |
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Similar structure data |
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Links
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Assembly
Deposited unit | ![]()
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Unit cell |
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Details | Protein assembles to form a fiber. See PDB codes 1DZO and 1AY2. |
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Components
#1: Protein | Mass: 12696.225 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() |
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#2: Water | ChemComp-HOH / |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.1 Å3/Da / Density % sol: 41.53 % |
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Crystal grow | Temperature: 293 K / Method: vapor diffusion / pH: 8.2 Details: 60% Ammonium Sulfate, 0.1M Hepes, pH 8.2, VAPOR DIFFUSION, temperature 293K |
-Data collection
Diffraction | Mean temperature: 293 K |
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Diffraction source | Source: ![]() |
Detector | Type: RIGAKU RAXIS / Detector: IMAGE PLATE / Date: Aug 10, 2001 / Details: SUPPER MIRROR |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.54 Å / Relative weight: 1 |
Reflection | Resolution: 1.55→20.8 Å / Num. all: 10797 / Num. obs: 10797 / % possible obs: 94.6 % / Observed criterion σ(F): 0 / Observed criterion σ(I): 0 / Redundancy: 30 % / Biso Wilson estimate: 15 Å2 / Rmerge(I) obs: 0.109 / Rsym value: 0.109 / Net I/σ(I): 14.62 |
Reflection shell | Resolution: 1.8→1.85 Å / % possible all: 62.1 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: 1DZO Resolution: 1.55→20.8 Å / Cor.coef. Fo:Fc: 0.975 / Cor.coef. Fo:Fc free: 0.969 / SU B: 1.222 / SU ML: 0.043 / TLS residual ADP flag: LIKELY RESIDUAL / Cross valid method: THROUGHOUT / σ(F): 0 / σ(I): 0 / ESU R: 0.066 / ESU R Free: 0.07 / Stereochemistry target values: MAXIMUM LIKELIHOOD / Details: HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS
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Solvent computation | Ion probe radii: 0.8 Å / Shrinkage radii: 0.8 Å / VDW probe radii: 1.4 Å / Solvent model: BABINET MODEL WITH MASK | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 11.207 Å2
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Refinement step | Cycle: LAST / Resolution: 1.55→20.8 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 1.55→1.59 Å / Total num. of bins used: 20 /
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Refinement TLS params. | Method: refined / Refine-ID: X-RAY DIFFRACTION
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Refinement TLS group |
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