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Open data
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Basic information
Entry | Database: PDB / ID: 1oqw | ||||||
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Title | Full-Length PAK Pilin from Pseudomonas aeruginosa | ||||||
![]() | Fimbrial protein | ||||||
![]() | CELL ADHESION / Type IV pilin / fiber-forming protein / adhesion / Pseudomonas aerugionosa / PAK pilin | ||||||
Function / homology | ![]() | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Craig, L. / Arvai, A.S. / Forest, K.T. / Tainer, J.A. | ||||||
![]() | ![]() Title: Type IV Pilin Structure and Assembly: X-Ray and EM Analyses of Vibrio cholerae Toxin-Coregulated Pilus and Pseudomonas aeruginosa PAK Pilin Authors: Craig, L. / Taylor, R.K. / Pique, M.E. / Adair, B.A. / Arvai, A.S. / Singh, M. / Lloyd, S.J. / Shin, D.S. / Getzoff, E.D. / Yeager, M. / Forest, K.T. / Tainer, J.A. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 69.7 KB | Display | ![]() |
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PDB format | ![]() | 51.9 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 428.4 KB | Display | ![]() |
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Full document | ![]() | 431 KB | Display | |
Data in XML | ![]() | 15.5 KB | Display | |
Data in CIF | ![]() | 22.5 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 1oqvC ![]() 1dzoS C: citing same article ( S: Starting model for refinement |
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Similar structure data |
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Links
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Assembly
Deposited unit | ![]()
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2 | ![]()
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Unit cell |
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Details | thousands of pilin subunits assemble to form a long thin filament ~8 nm in diameter and several microns in length |
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Components
#1: Protein | Mass: 15021.180 Da / Num. of mol.: 2 / Source method: isolated from a natural source / Source: (natural) ![]() ![]() #2: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 3.21 Å3/Da / Density % sol: 61.38 % | ||||||||||||||||||||||||||||||||||||||||||
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Crystal grow | Temperature: 293 K / Method: vapor diffusion, hanging drop / pH: 5.6 Details: 15% MPD, 35% PEG 4000, 100 mM sodium citrate, 2.5 mM MnCl2, pH 5.6, VAPOR DIFFUSION, HANGING DROP, temperature 293K | ||||||||||||||||||||||||||||||||||||||||||
Crystal grow | *PLUS Method: vapor diffusion, sitting drop | ||||||||||||||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: ADSC QUANTUM 4 / Detector: CCD / Date: Jun 28, 2000 |
Radiation | Monochromator: double crystal monochromator / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.9791 Å / Relative weight: 1 |
Reflection | Resolution: 2→30 Å / Num. all: 29079 / Num. obs: 28468 / % possible obs: 97.2 % / Observed criterion σ(F): 0 / Observed criterion σ(I): -3.7 / Redundancy: 3.24 % / Biso Wilson estimate: 33.7 Å2 / Rmerge(I) obs: 0.079 / Net I/σ(I): 14.8 |
Reflection shell | Resolution: 2→2.07 Å / Redundancy: 2.28 % / Rmerge(I) obs: 0.33 / Mean I/σ(I) obs: 2.4 / Num. unique all: 2875 / % possible all: 83.6 |
Reflection | *PLUS Num. obs: 29308 / Num. measured all: 324152 |
Reflection shell | *PLUS % possible obs: 83.6 % / Rmerge(I) obs: 0.329 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: 1DZO.pdb Resolution: 2→30 Å / Cross valid method: used throughout refinement / σ(F): 0 / Stereochemistry target values: Engh & Huber
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Displacement parameters |
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Refine analyze | Luzzati coordinate error obs: 0.25 Å / Luzzati d res low obs: 5 Å | |||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2→30 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 2→2.3 Å /
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Refinement | *PLUS Highest resolution: 2 Å / Lowest resolution: 30 Å / % reflection Rfree: 5 % | |||||||||||||||||||||||||
Solvent computation | *PLUS | |||||||||||||||||||||||||
Displacement parameters | *PLUS | |||||||||||||||||||||||||
Refine LS restraints | *PLUS Type: c_bond_d / Dev ideal: 0.007 |