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Open data
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Basic information
Entry | Database: PDB / ID: 4jle | ||||||
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Title | Structure of the P. falciparum PFI1780w PHIST domain | ||||||
![]() | PHIST | ||||||
![]() | PROTEIN BINDING / 3-helix bundle / Protein interaction module / PfEMP1 ATS domain / Human P. falciparum-infected erythrocytes | ||||||
Function / homology | ![]() Maurer's cleft / host cell cytosol / membrane => GO:0016020 / host cell plasma membrane Similarity search - Function | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Slater, L. / Vakonakis, I. | ||||||
![]() | ![]() Title: A Plasmodium falciparum PHIST protein binds the virulence factor PfEMP1 and comigrates to knobs on the host cell surface. Authors: Oberli, A. / Slater, L.M. / Cutts, E. / Brand, F. / Mundwiler-Pachlatko, E. / Rusch, S. / Masik, M.F. / Erat, M.C. / Beck, H.P. / Vakonakis, I. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 146 KB | Display | ![]() |
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PDB format | ![]() | 117.1 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 451 KB | Display | ![]() |
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Full document | ![]() | 453.7 KB | Display | |
Data in XML | ![]() | 13 KB | Display | |
Data in CIF | ![]() | 17 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Similar structure data |
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Links
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Assembly
Deposited unit | ![]()
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2 | ![]()
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3 | ![]()
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Unit cell |
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Details | The asymmetric unit contains one helix-swapped protein dimer, however in solution under physiological conditions the protein is a monomer |
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Components
#1: Protein | Mass: 20518.676 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() Strain: P. falciparum 3D7 / Gene: PFI1780w / Plasmid: PGEX-6P-2 / Production host: ![]() ![]() #2: Chemical | ChemComp-CL / #3: Chemical | ChemComp-ACT / | #4: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.6 Å3/Da / Density % sol: 52.65 % |
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Crystal grow | Temperature: 298 K / Method: vapor diffusion, sitting drop / pH: 4.6 Details: 2.0M Sodium Chloride 0.1M Sodium Acetate 22.5% Glycerol, pH 4.6, VAPOR DIFFUSION, SITTING DROP, temperature 298K |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: ADSC QUANTUM 315r / Detector: CCD / Date: Dec 10, 2011 |
Radiation | Monochromator: Double crystal monochromator / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.9795 Å / Relative weight: 1 |
Reflection | Resolution: 2.35→146.4 Å / Num. all: 18438 / Num. obs: 18438 / % possible obs: 99.9 % / Observed criterion σ(F): 0 / Observed criterion σ(I): 0 / Redundancy: 3.6 % / Biso Wilson estimate: 53.38 Å2 / Rmerge(I) obs: 0.063 / Rsym value: 0.063 / Net I/σ(I): 11.8 |
Reflection shell | Resolution: 2.35→2.48 Å / Redundancy: 3.7 % / Rmerge(I) obs: 0.494 / Mean I/σ(I) obs: 2.4 / Num. unique all: 2646 / Rsym value: 0.494 / % possible all: 100 |
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Processing
Software | Name: BUSTER / Version: 2.10.0 / Classification: refinement | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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Refinement | Method to determine structure: ![]() Isotropic thermal model: Isotropic thermal model with 1 TLS group per chain Cross valid method: THROUGHOUT / σ(F): 0 / Stereochemistry target values: Engh & Huber
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Displacement parameters | Biso mean: 66.53 Å2
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Refine analyze | Luzzati coordinate error obs: 0.369 Å | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.35→56.71 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 2.35→2.49 Å / Total num. of bins used: 9
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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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