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- PDB-4irf: Preliminary structural investigations of a malarial protein secre... -
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Basic information
Entry | Database: PDB / ID: 4irf | ||||||
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Title | Preliminary structural investigations of a malarial protein secretion system | ||||||
![]() | MALARIAL CLPB2 ATPASE/HSP101 PROTEIN | ||||||
![]() | CHAPERONE / MALARIA / AAA+ ATPASE ClpB CHAPERONE / N-TERMINAL CARGO-BINDING DOMAIN / PROTEIN TRANSLOCATION AND UNFOLDING / PARASITOPHOROUS VACUOLE | ||||||
Function / homology | ![]() PTEX complex / apical complex / symbiont-containing vacuole / translocation of peptides or proteins into host cell cytoplasm / symbiont-containing vacuole membrane / response to unfolded protein / cellular response to heat / response to heat / ATP hydrolysis activity / ATP binding / cytoplasm Similarity search - Function | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Egea, P.F. | ||||||
![]() | ![]() Title: Structural mapping of the ClpB ATPases of Plasmodium falciparum: Targeting protein folding and secretion for antimalarial drug design. Authors: AhYoung, A.P. / Koehl, A. / Cascio, D. / Egea, P.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 | ![]() | 130 KB | Display | ![]() |
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PDB format | ![]() | 103.2 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Arichive directory | ![]() ![]() | HTTPS FTP |
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-Related structure data
Related structure data | ![]() 4iodSC ![]() 4xbiC 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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2 | ![]()
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Unit cell |
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Components
#1: Protein | Mass: 17333.771 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() Strain: 3D7 / Gene: PF11_0175, PF3D7_1116800 / Plasmid: PCDF / Production host: ![]() ![]() #2: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.05 Å3/Da / Density % sol: 39.9 % |
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Crystal grow | Temperature: 273 K / pH: 9.4 Details: PEG 3350 20%, 0.1M CAPSO pH 9.4, 10% GLYCEROL, VAPOR DIFFUSION, HANGING DROP, temperature 273K |
-Data collection
Diffraction | Mean temperature: 77 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: PSI PILATUS 6M / Detector: PIXEL / Date: Dec 9, 2012 |
Radiation | Monochromator: CRYOGENICALLY-COOLED SINGLE CRYSTAL SI(111) SIDE BOUNCE MONOCHROMATOR. Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.97918 Å / Relative weight: 1 |
Reflection | Resolution: 1.645→66.78 Å / Num. obs: 35144 / % possible obs: 99.1 % / Observed criterion σ(I): 2 / Redundancy: 8.2 % / Biso Wilson estimate: 28.2 Å2 / Rsym value: 0.063 / Net I/σ(I): 15 |
Reflection shell | Resolution: 1.65→1.67 Å / Redundancy: 8.1 % / Rmerge(I) obs: 0.509 / Mean I/σ(I) obs: 2.7 / Rsym value: 0.478 / % possible all: 94.9 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: PDB ENTRY 4IOD Resolution: 1.65→66.78 Å / SU ML: 0.2 / σ(F): 1.99 / Phase error: 25.69 / Stereochemistry target values: ML
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Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.11 Å / Solvent model: FLAT BULK SOLVENT MODEL | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 1.65→66.78 Å
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Refine LS restraints |
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LS refinement shell |
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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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