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- PDB-1zk5: Escherichia coli F17fG lectin domain complex with N-acetylglucosamine -
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Open data
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Basic information
Entry | Database: PDB / ID: 1zk5 | ||||||
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Title | Escherichia coli F17fG lectin domain complex with N-acetylglucosamine | ||||||
![]() | F17G adhesin subunit | ||||||
![]() | CELL ADHESION / lectin / beta sandwich / protein-structure complex / immunoglobulin-like fold | ||||||
Function / homology | ![]() adhesion of symbiont to host / pilus / carbohydrate binding / cell adhesion Similarity search - Function | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Buts, L. / Wellens, A. / Van Molle, I. / De Genst, E. / Wyns, L. / Loris, R. / Lahmann, M. / Oscarson, S. / De Greve, H. / Bouckaert, J. | ||||||
![]() | ![]() Title: Impact of natural variation in bacterial F17G adhesins on crystallization behaviour. Authors: Buts, L. / Wellens, A. / Van Molle, I. / Wyns, L. / Loris, R. / Lahmann, M. / Oscarson, S. / De Greve, H. / Bouckaert, J. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 52.4 KB | Display | ![]() |
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PDB format | ![]() | 35.5 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 444 KB | Display | ![]() |
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Full document | ![]() | 445.5 KB | Display | |
Data in XML | ![]() | 11.5 KB | Display | |
Data in CIF | ![]() | 16.8 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 1zplC ![]() 2bs7C ![]() 2bs8C ![]() 2bsbC ![]() 2bscC ![]() 1o9vS 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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Components on special symmetry positions |
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Components
#1: Protein | Mass: 18859.789 Da / Num. of mol.: 1 / Fragment: residues 23-198 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() |
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#2: Sugar | ChemComp-NAG / |
#3: Water | ChemComp-HOH / |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.17 Å3/Da / Density % sol: 43.35 % |
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Crystal grow | Temperature: 298 K / Method: vapor diffusion, hanging drop / pH: 5.6 Details: 20% (v/v) isopropanol, 20% PEG 4000, 100 mM Na citrate, pH 5.6, VAPOR DIFFUSION, HANGING DROP, temperature 298K |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: MARRESEARCH / Detector: CCD / Date: Nov 28, 2004 |
Radiation | Monochromator: DESY X11 / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.811 Å / Relative weight: 1 |
Reflection | Resolution: 1.38→50 Å / Num. all: 33091 / Num. obs: 32992 / % possible obs: 99.7 % / Observed criterion σ(F): 0 / Observed criterion σ(I): 0 / Biso Wilson estimate: 11.3 Å2 / Rmerge(I) obs: 0.048 / Net I/σ(I): 15.7 |
Reflection shell | Resolution: 1.38→1.43 Å / Rmerge(I) obs: 0.242 / % possible all: 99 |
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Processing
Software |
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Refinement | Method to determine structure: ![]() Starting model: PDB entry 1O9V Resolution: 1.4→50 Å / Cross valid method: THROUGHOUT / σ(F): 0 / Stereochemistry target values: Engh & Huber
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Refinement step | Cycle: LAST / Resolution: 1.4→50 Å
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LS refinement shell | Resolution: 1.4→1.47 Å / Rfactor Rfree error: 0.013
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