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Yorodumi- PDB-5vr5: Peptide 38142 modified from fragment 41-60 of Plasmodium falcipar... -
+Open data
-Basic information
Entry | Database: PDB / ID: 5vr5 | ||||||
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Title | Peptide 38142 modified from fragment 41-60 of Plasmodium falciparum Thrombospondin-Related Sporozoite Protein (TRSP) | ||||||
Components | Thrombospondin-Related Sporozoite Protein (TRSP) | ||||||
Keywords | CELL INVASION / Modified peptide / Chemically synthesized / TRSP / Alpha helix residues 7-10 | ||||||
Function / homology | CCN, TSP1 domain / CCN3 Nov like TSP1 domain / Thrombospondin type-1 (TSP1) repeat superfamily / Thrombospondin type-1 (TSP1) repeat profile. / Thrombospondin type 1 repeats / Thrombospondin type-1 (TSP1) repeat / signal transduction / plasma membrane / Thrombospondin-related sporozoite protein Function and homology information | ||||||
Biological species | Plasmodium falciparum (malaria parasite P. falciparum) | ||||||
Method | SOLUTION NMR / DGSA-distance geometry simulated annealing | ||||||
Authors | Bermudez, A. / Patarroyo, M.E. | ||||||
Citation | Journal: To Be Published Title: Peptide 38142 modified from fragment 41-60 of Plasmodium falciparum Thrombospondin-Related Sporozoite Protein (TRSP) Authors: Bermudez, A. / Patarroyo, M.E. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 5vr5.cif.gz | 67.7 KB | Display | PDBx/mmCIF format |
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PDB format | pdb5vr5.ent.gz | 45.1 KB | Display | PDB format |
PDBx/mmJSON format | 5vr5.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/vr/5vr5 ftp://data.pdbj.org/pub/pdb/validation_reports/vr/5vr5 | HTTPS FTP |
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-Related structure data
Similar structure data | |
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Other databases |
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-Links
-Assembly
Deposited unit |
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1 |
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NMR ensembles |
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-Components
#1: Protein/peptide | Mass: 2434.643 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Plasmodium falciparum (malaria parasite P. falciparum) Production host: Escherichia coli (E. coli) / References: UniProt: Q8I2A0*PLUS |
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-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR | ||||||||||||||||||||||||||||||
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NMR experiment |
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NMR details | Text: NULL |
-Sample preparation
Details | Type: solution / Contents: 16.6 mg/mL 38142, trifluoroethanol/water Details: Peptide 38142 modified from fragment 41-60 of Plasmodium falciparum Thrombospondin-Related Sporozoite Protein (TRSP) Label: 38142 / Solvent system: trifluoroethanol/water | ||||||||||||||||||||
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Sample | Conc.: 16.6 mg/mL / Component: 38142 / Isotopic labeling: natural abundance | ||||||||||||||||||||
Sample conditions | Ionic strength: NULL Not defined / pH: 3.7 / PH err: 0.1 / Pressure: AMBIENT atm / Temperature err: 0.1
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-NMR measurement
NMR spectrometer | Type: Bruker DRX / Manufacturer: Bruker / Model: DRX / Field strength: 600 MHz |
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-Processing
NMR software | Name: Insight II / Classification: refinement |
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Refinement | Method: DGSA-distance geometry simulated annealing / Software ordinal: 1 |
NMR ensemble | Conformer selection criteria: structures with the lowest energy Conformers calculated total number: 50 / Conformers submitted total number: 11 |