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Yorodumi- SASDH92: Plasmodium falciparum lipocalin: Dimer-tetramer equilibrium throu... -
+Open data
-Basic information
Entry | Database: SASBDB / ID: SASDH92 |
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Sample | Plasmodium falciparum lipocalin: Dimer-tetramer equilibrium through a concentration series (combined batch and SEC-SAXS measurements)
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Function / homology | Calycin / Parasitophorous vacuolar protein 5, putative Function and homology information |
Biological species | Plasmodium falciparum (isolate 3D7) (eukaryote) |
Contact author |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Data source
SASBDB page | SASDH92 |
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-Related structure data
Similar structure data | Similarity search - Function & homologyF&H Search |
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-External links
Related items in Molecule of the Month |
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-Models
Model #3920 | Type: atomic / Symmetry: P222 Comment: Tetramer model: volume fractions @ 10, 5, 2, & 1 mg/ml: 0.78, 0.66, 0.44, 0.24 (0.15 from SEC) Chi-square value: 1.27 / P-value: 0.005535 |
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Model #3921 | Type: atomic / Symmetry: P2 Comment: Dimer model: volume fractions @ 10, 5, 2, & 1 mg/ml: 0.22, 0.34, 0.56, 0.76 (0.85 from SEC) Chi-square value: 1.27 / P-value: 0.005535 |
-Sample
Sample | Name: Plasmodium falciparum lipocalin: Dimer-tetramer equilibrium through a concentration series (combined batch and SEC-SAXS measurements) Specimen concentration: 10 mg/ml |
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Buffer | Name: 20 mM Tris pH7.5, 150 mM NaCl, 5% v/v glycerol / pH: 7.5 |
Entity #1964 | Name: PfLipocalin / Type: protein / Description: Plasmodium falciparum Lipocalin / Formula weight: 22.223 / Num. of mol.: 4 / Source: Plasmodium falciparum (isolate 3D7) / References: UniProt: Q8I2Q0 Sequence: PGNDNNNVNN DGVVHVLSKN IDVKNLQGTF YEIATNASDK IFPGLACRCT KYEFSGLKRD GNLGYVLINF SCARNFIFGE KKSEMTFKLI LNKPLDENTT TVEEFNASIY LVQGNQQILL NGNINIIYAE LNEQNEFEHL ILGGQKSIEP MIIMSKYRTV LLDTYNKLIN ...Sequence: PGNDNNNVNN DGVVHVLSKN IDVKNLQGTF YEIATNASDK IFPGLACRCT KYEFSGLKRD GNLGYVLINF SCARNFIFGE KKSEMTFKLI LNKPLDENTT TVEEFNASIY LVQGNQQILL NGNINIIYAE LNEQNEFEHL ILGGQKSIEP MIIMSKYRTV LLDTYNKLIN SLYLAGYEPS LLTWPFIIQT DQTFCD |
-Experimental information
Beam | Instrument name: PETRA III EMBL P12 / City: Hamburg / 国: Germany / Type of source: X-ray synchrotron / Wavelength: 0.124 Å / Dist. spec. to detc.: 3 mm | ||||||||||||||||||||||||||||||
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Detector | Name: Pilatus 6M | ||||||||||||||||||||||||||||||
Scan | Title: Plasmodium falciparum lipocalin: Dimer-tetramer equilibrium through a concentration series (combined batch and SEC-SAXS measurements) Measurement date: Apr 8, 2019 / Storage temperature: 20 °C / Cell temperature: 10 °C / Exposure time: 0.05 sec. / Number of frames: 20 / Unit: 1/nm /
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Distance distribution function P(R) | Sofotware P(R): GNOM 5.0 / Number of points: 1389 /
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Result | Type of curve: single_conc Comments: The models displayed in this entry fit the concentration series and SEC-SAXS data as a concentration-dependent tetramer-dimer equilibrium. The volume fraction of the tetramer decreases ...Comments: The models displayed in this entry fit the concentration series and SEC-SAXS data as a concentration-dependent tetramer-dimer equilibrium. The volume fraction of the tetramer decreases systematically as the sample concentration ins decreased, or via dilution through the SEC column (evaluated using SASREFmx in P222 (tetramer) P2 (dimer) symmery). The volume fractions of tetramer are: 10 mg/ml, 0.78; 5 mg/ml, 0.66; 2 mg/ml, 0.44; 1 mg/ml, 0.24 and for SEC, 0.15. Additional SASREFmx models, and their associated volume fractions (that do not differ significantly to the models and volume fractions reported here) are included in the full-entry zip archive.
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