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- SASDEU6: Polyglutamine-binding protein 1 p.Arg153Serfs*41 (PQBP-1 XLID mut... -

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Basic information

Entry
Database: SASBDB / ID: SASDEU6
SamplePolyglutamine-binding protein 1 p.Arg153Serfs*41 (PQBP-1 XLID mutant R153Sfs*41)
  • Polyglutamine-binding protein 1 p.Arg153Serfs*41 (protein), R153Sfs*41, Homo sapiens
Function / homology
Function and homology information


neuronal ribonucleoprotein granule / alternative mRNA splicing, via spliceosome / regulation of dendrite morphogenesis / cellular response to exogenous dsRNA / regulation of RNA splicing / positive regulation of type I interferon production / ribonucleoprotein complex binding / positive regulation of defense response to virus by host / activation of innate immune response / mRNA Splicing - Major Pathway ...neuronal ribonucleoprotein granule / alternative mRNA splicing, via spliceosome / regulation of dendrite morphogenesis / cellular response to exogenous dsRNA / regulation of RNA splicing / positive regulation of type I interferon production / ribonucleoprotein complex binding / positive regulation of defense response to virus by host / activation of innate immune response / mRNA Splicing - Major Pathway / cytoplasmic stress granule / neuron projection development / double-stranded DNA binding / defense response to virus / transcription coactivator activity / nuclear body / nuclear speck / innate immune response / regulation of DNA-templated transcription / DNA binding / nucleoplasm / nucleus / cytoplasm
Similarity search - Function
WW domain superfamily / WW/rsp5/WWP domain profile. / Domain with 2 conserved Trp (W) residues / WW domain
Similarity search - Domain/homology
Polyglutamine-binding protein 1
Similarity search - Component
Biological speciesHomo sapiens (human)
CitationJournal: J Struct Biol / Year: 2019
Title: Frameshift PQBP-1 mutants K192S and R153S implicated in X-linked intellectual disability form stable dimers.
Authors: Shah Kamranur Rahman / Hitoshi Okazawa / Yu Wai Chen /
Abstract: Polyglutamine tract-binding protein-1 (PQBP-1) is a nuclear intrinsically disordered protein playing important roles in transcriptional regulation and RNA splicing during embryonic and postembryonic ...Polyglutamine tract-binding protein-1 (PQBP-1) is a nuclear intrinsically disordered protein playing important roles in transcriptional regulation and RNA splicing during embryonic and postembryonic development. In human, its mutations lead to severe cognitive impairment known as the Renpenning syndrome, a form of X-linked intellectual disability (XLID). Here, we report a combined biophysical study of two PQBP-1 frameshift mutants, K192S and R153S. Both mutants are dimeric in solution, in contrast to the monomeric wild-type protein. These mutants contain more folded contents and have increased thermal stabilities. Using small-angle X-ray scattering data, we generated three-dimensional envelopes which revealed their overall flat shapes. We also described each mutant using an ensemble model based on a native-like initial pool with a dimeric structural core. PQBP-1 is known to repress transcription by way of interacting with the C-terminal domain of RNA polymerase II, which consists of 52 repeats of a consensus heptapeptide sequence YSPTSPS. We studied the binding of PQBP-1 variants to the labelled peptide which is phosphorylated at positions 2 and 5 (YpSPTpSPS) and found that this interaction is significantly weakened in the two mutants.
Contact author
  • Yu Wai Chen (King's College London)

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Structure visualization

Structure viewerMolecule:
MolmilJmol/JSmol

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Models

Model #2561
Type: dummy / Radius of dummy atoms: 3.00 A / Chi-square value: 1.336336 / P-value: 0.005645
Search similar-shape structures of this assembly by Omokage search (details)

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Sample

SampleName: Polyglutamine-binding protein 1 p.Arg153Serfs*41 (PQBP-1 XLID mutant R153Sfs*41)
Specimen concentration: 1.00-7.30
BufferName: Phosphate-buffered saline / pH: 7.4
Entity #1351Name: R153Sfs*41 / Type: protein
Description: Polyglutamine-binding protein 1 p.Arg153Serfs*41
Formula weight: 21.914 / Num. of mol.: 2 / Source: Homo sapiens / References: UniProt: O60828
Sequence: GPMPLPVALQ TRLAKRGILK HLEPEPEEEI IAEDYDDDPV DYEATRLEGL PPSWYKVFDP SCGLPYYWNA DTDLVSWLSP HDPNSVVTKS AKKLRSSNAD AEEKLDRSHD KSDRGHDKSD RSHEKLDRGH DKSDRGHDKS DRDRERGYDK VDRESETGNG IGTAGMTRQT ...Sequence:
GPMPLPVALQ TRLAKRGILK HLEPEPEEEI IAEDYDDDPV DYEATRLEGL PPSWYKVFDP SCGLPYYWNA DTDLVSWLSP HDPNSVVTKS AKKLRSSNAD AEEKLDRSHD KSDRGHDKSD RSHEKLDRGH DKSDRGHDKS DRDRERGYDK VDRESETGNG IGTAGMTRQT GKRAKNGATI AGRSWLPIPR ARRQ

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Experimental information

BeamInstrument name: DORIS III EMBL X33 / 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: Polyglutamine-binding protein 1 p.Arg153Serfs*41 (PQBP-1 XLID mutant R153Sfs*41)
Measurement date: Feb 15, 2013 / Cell temperature: 10 °C / Exposure time: 0.045 sec. / Unit: 1/nm /
MinMax
Q0.0813 4.1816
Distance distribution function P(R)
Sofotware P(R): GNOM 4.5a / Number of points: 506 /
MinMax
Q0.1609 4.18
P(R) point29 534
R0 13
Result
Type of curve: merged
Comments: The entry displays the EOM ensemble Rg distributions and the fit to the data of the refined ensemble. The full EOM ensemble and log file describing the associated volume fractions is ...Comments: The entry displays the EOM ensemble Rg distributions and the fit to the data of the refined ensemble. The full EOM ensemble and log file describing the associated volume fractions is available for download in the full entry zip-archive.
ExperimentalStandardPorod
MW45.49 kDa45.49 kDa-
Volume--100 nm3

P(R)P(R) errorGuinierGuinier error
Forward scattering, I02971 9.293 3006.99 16.14
Radius of gyration, Rg3.61 nm0.01 3.61 nm0.19

MinMaxError
D-13 1
Guinier point8 106 -

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