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- PDB-4u0q: Plasmodium falciparum reticulocyte-binding protein homologue 5 (P... -
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Open data
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Basic information
Entry | Database: PDB / ID: 4u0q | ||||||
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Title | Plasmodium falciparum reticulocyte-binding protein homologue 5 (PfRH5) bound to basigin | ||||||
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![]() | SIGNALING PROTEIN / Malaria Erythrocyte invasion | ||||||
Function / homology | ![]() Defective SLC16A1 causes symptomatic deficiency in lactate transport (SDLT) / Proton-coupled monocarboxylate transport / positive regulation of matrix metallopeptidase secretion / acrosomal membrane / dendrite self-avoidance / response to mercury ion / cell-cell adhesion mediator activity / endothelial tube morphogenesis / neural retina development / Pyruvate metabolism ...Defective SLC16A1 causes symptomatic deficiency in lactate transport (SDLT) / Proton-coupled monocarboxylate transport / positive regulation of matrix metallopeptidase secretion / acrosomal membrane / dendrite self-avoidance / response to mercury ion / cell-cell adhesion mediator activity / endothelial tube morphogenesis / neural retina development / Pyruvate metabolism / photoreceptor cell maintenance / Basigin interactions / Aspirin ADME / odontogenesis of dentin-containing tooth / homophilic cell adhesion via plasma membrane adhesion molecules / D-mannose binding / decidualization / photoreceptor outer segment / positive regulation of vascular endothelial growth factor production / Integrin cell surface interactions / response to cAMP / embryo implantation / Degradation of the extracellular matrix / photoreceptor inner segment / positive regulation of endothelial cell migration / neutrophil chemotaxis / protein localization to plasma membrane / axon guidance / sarcolemma / response to peptide hormone / positive regulation of interleukin-6 production / melanosome / virus receptor activity / signaling receptor activity / basolateral plasma membrane / angiogenesis / positive regulation of viral entry into host cell / cell surface receptor signaling pathway / endosome / cadherin binding / Golgi membrane / axon / intracellular membrane-bounded organelle / focal adhesion / endoplasmic reticulum membrane / mitochondrion / extracellular exosome / membrane / plasma membrane Similarity search - Function | ||||||
Biological species | ![]() ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Wright, K.E. / Hjerrild, K.A. / Bartlett, J. / Douglas, A.D. / Jin, J. / Brown, R.E. / Ashfield, R. / Clemmensen, S.B. / de Jongh, W.A. / Draper, S.J. / Higgins, M.K. | ||||||
![]() | ![]() Title: Structure of malaria invasion protein RH5 with erythrocyte basigin and blocking antibodies. Authors: Wright, K.E. / Hjerrild, K.A. / Bartlett, J. / Douglas, A.D. / Jin, J. / Brown, R.E. / Illingworth, J.J. / Ashfield, R. / Clemmensen, S.B. / de Jongh, W.A. / Draper, S.J. / Higgins, M.K. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 395.6 KB | Display | ![]() |
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PDB format | ![]() | 320.7 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 459.3 KB | Display | ![]() |
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Full document | ![]() | 473.3 KB | Display | |
Data in XML | ![]() | 32 KB | Display | |
Data in CIF | ![]() | 43.8 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 4u0rSC ![]() 4u1gC ![]() 3b5hS 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: 63128.816 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() Production host: ![]() ![]() #2: Protein | Mass: 29254.938 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal grow | Temperature: 277 K / Method: vapor diffusion, sitting drop Details: 0.2M lithium sulphate, 20% PEG 4000, 0.1M MES pH 6.0 |
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-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: PSI PILATUS 6M / Detector: PIXEL / Date: Jan 18, 2014 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.92 Å / Relative weight: 1 |
Reflection | Resolution: 3.1→67.46 Å / Num. obs: 23402 / % possible obs: 99.8 % / Redundancy: 6.1 % / Biso Wilson estimate: 66.77 Å2 / Net I/σ(I): 9.4 |
Reflection shell | Resolution: 3.1→3.27 Å / Redundancy: 6.2 % / Rmerge(I) obs: 0.297 / Mean I/σ(I) obs: 2.7 / % possible all: 99.8 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: 4U0R, 3B5H Resolution: 3.1→62.4 Å / Cor.coef. Fo:Fc: 0.8838 / Cor.coef. Fo:Fc free: 0.8393 / Cross valid method: THROUGHOUT / σ(F): 0 / SU Rfree Blow DPI: 0.424
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Displacement parameters | Biso mean: 50.95 Å2
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Refine analyze | Luzzati coordinate error obs: 0.631 Å | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: 1 / Resolution: 3.1→62.4 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 3.1→3.24 Å / Total num. of bins used: 12
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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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