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- SASDDX4: Wild-type Protein sex-lethal (Protein sex-lethal, Sxl) -

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Basic information

Entry
Database: SASBDB / ID: SASDDX4
SampleWild-type Protein sex-lethal
  • Protein sex-lethal (protein), Sxl, Drosophila melanogaster
Function / homology
Function and homology information


sex determination, primary response to X:A ratio / germarium-derived cystoblast division / epithelium regeneration / female sex determination / somatic sex determination / female germ-line sex determination / oocyte differentiation / imaginal disc growth / regulation of stem cell division / sex determination ...sex determination, primary response to X:A ratio / germarium-derived cystoblast division / epithelium regeneration / female sex determination / somatic sex determination / female germ-line sex determination / oocyte differentiation / imaginal disc growth / regulation of stem cell division / sex determination / negative regulation of RNA export from nucleus / poly-pyrimidine tract binding / sex-chromosome dosage compensation / sex differentiation / alternative mRNA splicing, via spliceosome / negative regulation of receptor signaling pathway via JAK-STAT / poly(A) binding / positive regulation of smoothened signaling pathway / pre-mRNA binding / regulation of mRNA splicing, via spliceosome / reciprocal meiotic recombination / poly(U) RNA binding / regulation of alternative mRNA splicing, via spliceosome / oogenesis / negative regulation of mRNA splicing, via spliceosome / negative regulation of translational initiation / mRNA regulatory element binding translation repressor activity / positive regulation of RNA splicing / mRNA 3'-UTR binding / mRNA 5'-UTR binding / negative regulation of translation / protein stabilization / ribonucleoprotein complex / mRNA binding / protein-containing complex / RNA binding / nucleus / cytosol / cytoplasm
Similarity search - Function
Sex-lethal splicing factor / Paraneoplastic encephalomyelitis antigen / RNA recognition motif / RNA recognition motif / Eukaryotic RNA Recognition Motif (RRM) profile. / RNA recognition motif domain / RNA-binding domain superfamily / Nucleotide-binding alpha-beta plait domain superfamily
Similarity search - Domain/homology
Biological speciesDrosophila melanogaster (fruit fly)
CitationJournal: ACS Comb Sci / Year: 2018
Title: A General Small-Angle X-ray Scattering-Based Screening Protocol Validated for Protein-RNA Interactions.
Authors: Po-Chia Chen / Pawel Masiewicz / Vladimir Rybin / Dmitri Svergun / Janosch Hennig /
Abstract: We present a screening protocol utilizing small-angle X-ray scattering (SAXS) to obtain structural information on biomolecular interactions independent of prior knowledge, so as to complement ...We present a screening protocol utilizing small-angle X-ray scattering (SAXS) to obtain structural information on biomolecular interactions independent of prior knowledge, so as to complement affinity-based screening and provide leads for further exploration. This protocol categorizes ligand titrations by computing pairwise agreement between curves, and separately estimates affinities by quantifying complex formation as a departure from the linear sum properties of solution SAXS. The protocol is validated by sparse sequence search around the native poly uridine RNA motifs of the two-RRM domain Sex-lethal protein (Sxl). The screening of 35 RNA motifs between 4 to 10 nucleotides reveals a strong variation of resulting complexes, revealed to be preference-switching between 1:1 and 2:2 binding stoichiometries upon addition of structural modeling. Validation of select sequences in isothermal calorimetry and NMR titration retrieves domain-specific roles and function of a guanine anchor. These findings reinforce the suitability of SAXS as a complement in lead identification.
Contact author
  • Po-chia Chen (EMBL, European Molecular Biology Laboratory (EMBL) - Heidelberg, Heidelberg, Germany)

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Structure visualization

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Models

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Sample

SampleName: Wild-type Protein sex-lethal / Specimen concentration: 1 mg/ml
BufferName: 10 mM KP, 50 mM NaCl, 10 mM DTT / pH: 6
Entity #1005Name: Sxl / Type: protein / Description: Protein sex-lethal / Formula weight: 19.771 / Num. of mol.: 1 / Source: Drosophila melanogaster / References: UniProt: P19339
Sequence:
GAMASNTNLI VNYLPQDMTD RELYALFRAI GPINTCRIMR DYKTGYSFGY AFVDFTSEMD SQRAIKVLNG ITVRNKRLKV SYARPGGESI KDTNLYVTNL PRTITDDQLD TIFGKYGSIV QKNILRDKLT GRPRGVAFVR YNKREEAQEA ISALNNVIPE GGSQPLSVRL AEEHGK

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Experimental information

BeamInstrument name: PETRA III P12 / City: Hamburg / 国: Germany / Type of source: X-ray synchrotron / Wavelength: 0.124 Å / Dist. spec. to detc.: 3 mm
DetectorName: Pilatus 2M
Scan
Title: Wild-type Protein sex-lethal / Measurement date: Oct 16, 2016 / Storage temperature: 10 °C / Cell temperature: 25 °C / Exposure time: 0.045 sec. / Number of frames: 20 / Unit: 1/nm /
MinMax
Q0.0201 3.78
Distance distribution function P(R)
Sofotware P(R): GNOM 4.5a / Number of points: 433 /
MinMax
Q0.3052 3
P(R) point1 433
R0 6.868
Result
Type of curve: single_conc
ExperimentalStandardStandard errorPorod
MW16.07 kDa16.075 kDa3.21 15.3 kDa
Volume---26.02 nm3

P(R)P(R) errorGuinierGuinier error
Forward scattering, I01186 8.6 1190.6 6.6
Radius of gyration, Rg1.99 nm0.02 1.97 nm0.1

MinMax
D-6.87
Guinier point29 308

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