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- PDB-8bvp: Crystal structure of an N-terminal fragment of the effector prote... -
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Open data
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Basic information
Entry | Database: PDB / ID: 8bvp | ||||||
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Title | Crystal structure of an N-terminal fragment of the effector protein Lpg2504 (SidI) from Legionella pneumophila | ||||||
![]() | Restriction endonuclease![]() | ||||||
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Function / homology | Uncharacterized protein![]() | ||||||
Biological species | ![]() ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Machtens, D.A. / Willerding, J.M. / Eschenburg, S. / Reubold, T.F. | ||||||
Funding support | 1items
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![]() | ![]() Title: Crystal structure of the N-terminal domain of the effector protein SidI of Legionella pneumophila reveals a glucosyl transferase domain. Authors: Machtens, D.A. / Willerding, J.M. / Eschenburg, S. / Reubold, T.F. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 126.1 KB | Display | ![]() |
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PDB format | ![]() | 97.1 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Arichive directory | ![]() ![]() | HTTPS FTP |
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-Related structure data
Similar structure data | Similarity search - Function & homology ![]() |
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Links
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Assembly
Deposited unit | ![]()
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Unit cell |
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Components
#1: Protein | ![]() Mass: 62175.129 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Details: DSMZ-7513 / Source: (gene. exp.) ![]() ![]() ![]() ![]() ![]() ![]() |
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#2: Chemical | ChemComp-EDO / ![]() |
#3: Chemical | ChemComp-CL / ![]() |
#4: Water | ChemComp-HOH / ![]() |
Has ligand of interest | N |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.89 Å3/Da / Density % sol: 57.45 % |
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Crystal grow![]() | Temperature: 291 K / Method: vapor diffusion, sitting drop / pH: 8.5 / Details: 100 mM Tris-HCl ph 8.5, 14 % ethanol |
-Data collection
Diffraction | Mean temperature: 100 K / Serial crystal experiment: N |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: DECTRIS PILATUS 6M / Detector: PIXEL / Date: Nov 17, 2019 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength![]() |
Reflection | Resolution: 2.1→36.12 Å / Num. obs: 41606 / % possible obs: 99.7 % / Redundancy: 6.9 % / CC1/2: 1 / Rrim(I) all: 0.037 / Net I/σ(I): 23.42 |
Reflection shell | Resolution: 2.1→2.2 Å / Redundancy: 2.04 % / Num. unique obs: 5384 / CC1/2: 0.846 / Rrim(I) all: 0.897 / % possible all: 100 |
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Processing
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Refinement | Method to determine structure![]() ![]()
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Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.1 Å / Solvent model: FLAT BULK SOLVENT MODEL | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.1→36.12 Å
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Refine LS restraints |
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LS refinement shell |
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