Affinage

SH3YL1

SH3 domain-containing YSC84-like protein 1 · UniProt Q96HL8

Length
342 aa
Mass
37.1 kDa
Annotated
2026-06-10
100 papers in source corpus 4 papers cited in narrative 4 extracted findings
Cross-family judge faithfulness: 4/4 claims corpus-supported (100%)

Mechanistic narrative

Synthesis pass · prose summary of the discoveries below

SH3YL1 is a SYLF/SH3 domain-containing phosphoinositide-binding scaffold protein that couples to NADPH oxidase signaling, small-GTPase-driven migration, and nuclear receptor transcriptional programs (PMID:33086058, PMID:24508479, PMID:26305679). In renal tubular epithelial cells, its SYLF and SH3 domains assemble a ternary complex with Nox4 and p22phox that is required for LPS-triggered H2O2 generation and pro-inflammatory cytokine expression; loss of SH3YL1 protects mice from LPS-induced acute kidney injury, reducing macrophage infiltration and tubular damage (PMID:33086058). Through its phosphoinositide-binding domain SH3YL1 engages the C-terminal proline-rich region of Dock4 to potentiate Dock4-mediated Rac1 activation and cancer cell migration (PMID:24508479). It additionally acts as an androgen receptor coregulator, binding the AR N-terminal polyproline domain to support androgen-dependent gene expression, proliferation, and migration in prostate cancer cells (PMID:26305679). The protein was originally identified in mouse skin as a hair-cycle-regulated transcript localized to the hair bulb and root sheaths (PMID:10771491), but its role in hair biology has not been mechanistically connected to its later-defined molecular activities in the available corpus.

Mechanistic history

Synthesis pass · year-by-year structured walk · 4 steps
  1. 2000 Medium

    Established SH3YL1 as a distinct gene product by identifying a novel mouse protein bearing a C-terminal SH3 domain homologous to yeast Ysc84, and tied its expression to a defined physiological program.

    Evidence Differential cDNA screening, northern blot, and in situ hybridization across the hair-growth cycle in mouse skin

    PMID:10771491

    Open questions at the time
    • No functional intervention linking the protein to hair biology
    • Molecular activity of the SH3 domain not tested
    • No binding partners identified
  2. 2014 Medium

    Defined a molecular function for SH3YL1 in cell migration by showing it is a phosphoinositide-binding partner of Dock4 that amplifies Rac1 activation.

    Evidence Co-IP with domain-mutation mapping, Rac1 pull-down activity assay, and siRNA knockdown migration assays in MDA-MB-231 breast cancer cells

    PMID:24508479

    Open questions at the time
    • Specific phosphoinositide species bound not resolved
    • Single-lab evidence without reciprocal in vivo validation
    • Whether membrane recruitment is the rate-limiting step is unclear
  3. 2015 Medium

    Extended SH3YL1's role into transcriptional regulation by identifying it as an androgen receptor coregulator acting through the AR polyproline domain.

    Evidence T7 phage display, Co-IP, siRNA knockdown, RNA expression analysis, and proliferation/migration assays in prostate cancer cells

    PMID:26305679

    Open questions at the time
    • Mechanism by which SH3YL1 modulates AR transcriptional output unknown
    • Direct vs scaffold-mediated AR binding not distinguished
    • Single-lab finding
  4. 2020 High

    Provided the strongest mechanistic and in vivo evidence by defining SH3YL1 as an obligate assembly factor for Nox4/p22phox-driven ROS production in inflammation.

    Evidence Reciprocal Co-IP of the SH3YL1-Nox4-p22phox ternary complex, domain deletion mapping, and SH3YL1 knockout mice in an LPS-induced acute kidney injury model with H2O2, cytokine, and histological readouts

    PMID:33086058

    Open questions at the time
    • Structural basis of ternary complex assembly not resolved
    • Whether SH3YL1 regulates other Nox isoforms untested
    • Relationship between Nox4 scaffolding and the Dock4/AR roles unexplored

Open questions

Synthesis pass · forward-looking unresolved questions
  • How SH3YL1's distinct activities — Nox4/p22phox scaffolding, Dock4/Rac1 migration signaling, and AR coregulation — are integrated or context-selected within a single cell remains unresolved.
  • No structural model of the SYLF or SH3 domains in complex
  • No unified study examining all three functions in one system
  • Lipid-binding selectivity and its role in partner choice undefined

Mechanism profile

Synthesis pass · controlled-vocabulary classification · explore literature graph →
Molecular activity
GO:0060090 molecular adaptor activity 2 GO:0098772 molecular function regulator activity 2 GO:0008289 lipid binding 1
Localization
GO:0005829 cytosol 1
Pathway
R-HSA-162582 Signal Transduction 1 R-HSA-168256 Immune System 1
Partners
Complex memberships
Nox4-p22phox-SH3YL1 ternary complex

Evidence

Reading pass · 4 per-paper findings extracted from the source corpus
Year Finding Method Journal Conf PMIDs
2020 SH3YL1 acts as a cytosolic regulator of NADPH oxidase 4 (Nox4): the SYLF domain and SH3 domain of SH3YL1 form a ternary complex with Nox4 and p22phox, and this complex is required for LPS-triggered H2O2 generation and pro-inflammatory cytokine expression in mouse tubular epithelial cells. SH3YL1 knockout mice show reduced acute kidney injury biomarkers, decreased pro-inflammatory cytokine secretion, decreased macrophage infiltration, and reduced tubular damage after LPS injection. Co-immunoprecipitation of SH3YL1-Nox4-p22phox complex, domain deletion/mutation analysis, SH3YL1 knockout mouse model with LPS-induced AKI, H2O2 measurement, cytokine assays, histological analysis Cell reports High 33086058
2014 SH3YL1 is a phosphoinositide-binding protein that interacts with the C-terminal proline-rich region of Dock4. This interaction promotes Dock4-mediated Rac1 activation and cancer cell migration. Mutations in the SH3YL1 phosphoinositide-binding domain disrupt its ability to promote Dock4-mediated cell migration. Depletion of SH3YL1 in MDA-MB-231 breast cancer cells suppresses cell migration. Co-immunoprecipitation, domain mutation analysis, Rac1 activity assay (pull-down), siRNA knockdown with migration assay Cellular signalling Medium 24508479
2015 SH3YL1 functions as a coregulator of the androgen receptor (AR) by interacting with the N-terminal polyproline domain of AR. This interaction is required for androgen-mediated gene expression (including induction of ubinuclein 1/UBN1), cell growth, and migration of prostate cancer cells. SH3YL1 knockdown attenuates androgen-dependent proliferation and migration. T7 phage display (identification of interaction), co-immunoprecipitation, siRNA knockdown, RNA expression analysis, cell proliferation and migration assays Molecular endocrinology (Baltimore, Md.) Medium 26305679
2000 Mouse Sh3yl1 encodes a novel protein containing a C-terminal SH3 domain with homology to yeast YHRO16c/Ysc84. In mouse skin, Sh3yl1 transcript expression follows the hair-growth cycle, increasing during mid and late anagen phases and decreasing during catagen and telogen. In situ hybridization localized Sh3yl1 transcripts predominantly to the hair bulb, hair shaft, inner root sheath, and outer root sheath during mid/late anagen phases. Differential cDNA library screening, northern blot, in situ hybridization, sequence homology analysis The Journal of investigative dermatology Medium 10771491

Source papers

Stage 0 corpus · 100 papers · ranked by NIH iCite citations
Year Title Journal Citations PMID
2011 Femtosecond X-ray protein nanocrystallography. Nature 1184 21293373
2011 X-ray structure of a bacterial oligosaccharyltransferase. Nature 306 21677752
1991 Protein kinase C mediates x-ray inducibility of nuclear signal transducers EGR1 and JUN. Proceedings of the National Academy of Sciences of the United States of America 273 1900938
2014 A glimpse of structural biology through X-ray crystallography. Cell 213 25416941
1993 X-ray structure of a decameric cyclophilin-cyclosporin crystal complex. Nature 184 8421501
2008 The X-ray crystal structure of RNA polymerase from Archaea. Nature 169 18235446
1983 X-ray studies of water in crystals of lysozyme. Journal of molecular biology 144 6876162
2000 x ray crystallography. Molecular pathology : MP 142 10884915
2010 X-ray structures of ferritins and related proteins. Biochimica et biophysica acta 137 20363295
2000 Automation of X-ray crystallography. Nature structural biology 127 11104004
2012 X-ray lasers for structural and dynamic biology. Reports on progress in physics. Physical Society (Great Britain) 115 22975810
2011 The race to x-ray microbeam and nanobeam science. Science (New York, N.Y.) 107 22144618
2020 NRF2 in Cardiovascular Diseases: a Ray of Hope! Journal of cardiovascular translational research 84 33241490
2020 LPS-Induced Acute Kidney Injury Is Mediated by Nox4-SH3YL1. Cell reports 79 33086058
2009 X-ray structure breakthroughs in the GPCR transmembrane region. Biochemical pharmacology 74 19447219
1990 X-ray induction of methotrexate resistance due to dhfr gene amplification. Somatic cell and molecular genetics 70 2122527
1998 The nicotinic acetylcholine receptor of the Torpedo electric ray. Journal of structural biology 65 9615437
2008 Protein structure determination by x-ray crystallography. Methods in molecular biology (Clifton, N.J.) 64 18563369
2021 The bowfin genome illuminates the developmental evolution of ray-finned fishes. Nature genetics 57 34462605
2021 Determination of X-ray detection limit and applications in perovskite X-ray detectors. Nature communications 53 34489444
2017 Quantifying Mesoscale Neuroanatomy Using X-Ray Microtomography. eNeuro 52 29085899
1987 Gene recombination in X-ray-sensitive hamster cells. Molecular and cellular biology 52 3037317
2002 Ray-interray interactions during fin regeneration of Danio rerio. Developmental biology 51 12482711
2011 Protein crystallization for X-ray crystallography. Journal of visualized experiments : JoVE 50 21304455
2012 MicroRNAs: a new ray of hope for diabetes mellitus. Protein & cell 49 23055040
2011 X-ray diffraction from membrane protein nanocrystals. Biophysical journal 46 21190672
2007 Evolution of gastrulation in the ray-finned (actinopterygian) fishes. Journal of experimental zoology. Part B, Molecular and developmental evolution 44 17285635
2008 An X-ray diffraction and X-ray absorption spectroscopy joint study of neuroglobin. Archives of biochemistry and biophysics 42 18406335
2008 X-ray induced damage in DNA monitored by X-ray photoelectron spectroscopy. The Journal of chemical physics 41 18715106
2016 DNA barcodes of the native ray-finned fishes in Taiwan. Molecular ecology resources 37 27717215
2004 X-ray diffraction of bacteriorhodopsin photocycle intermediates. Molecular membrane biology 37 15204622
2021 X-ray-responsive polypeptide nanogel for concurrent chemoradiotherapy. Journal of controlled release : official journal of the Controlled Release Society 36 33561483
2014 Dock4 forms a complex with SH3YL1 and regulates cancer cell migration. Cellular signalling 36 24508479
2011 X-ray-radiation-induced changes in bacteriorhodopsin structure. Journal of molecular biology 36 21530535
1985 X-ray structure of the nucleosome core particle. Journal of biomolecular structure & dynamics 36 3916941
2000 Chemical and gamma-ray mutagenesis of the white gene in Aedes aegypti. Insect molecular biology 35 10762419
2004 Taking X-ray diffraction to the limit: macromolecular structures from femtosecond X-ray pulses and diffraction microscopy of cells with synchrotron radiation. Annual review of biophysics and biomolecular structure 33 15139809
2019 Ray Parenchymal Cells Contribute to Lignification of Tracheids in Developing Xylem of Norway Spruce. Plant physiology 32 31558578
2016 Evaluating biomarkers to model cancer risk post cosmic ray exposure. Life sciences in space research 32 27345199
2012 X-ray imaging of leaf venation networks. The New phytologist 32 23025576
2004 Relationship between static mobility of the first ray and first ray, midfoot, and hindfoot motion during gait. Foot & ankle international 31 15215023
2018 Hacking CD/DVD/Blu-ray for Biosensing. ACS sensors 30 29978699
2017 Protein crystallization: Eluding the bottleneck of X-ray crystallography. AIMS biophysics 30 29051919
2013 Nanoimaging cells using soft X-ray tomography. Methods in molecular biology (Clifton, N.J.) 30 23086890
2016 X-ray structure of the MMTV-A nucleosome core. Proceedings of the National Academy of Sciences of the United States of America 28 26787910
1999 DNA vaccines: a ray of hope. Critical reviews in biochemistry and molecular biology 28 10090468
2020 Spin cascade and doming in ferric hemes: Femtosecond X-ray absorption and X-ray emission studies. Proceedings of the National Academy of Sciences of the United States of America 26 32848065
1996 Biochemical characterization of x-ray contrast media. Investigative radiology 26 8850363
2023 General Strategies for RNA X-ray Crystallography. Molecules (Basel, Switzerland) 25 36903357
2021 Shark and ray genomics for disentangling their morphological diversity and vertebrate evolution. Developmental biology 25 34102168
1997 Extended lifespan and immortalization of human fibroblasts induced by X-ray irradiation. Molecular carcinogenesis 25 9022808
2020 Genetically encoded X-ray cellular imaging for nanoscale protein localization. National science review 24 34692146
2018 Bringing diffuse X-ray scattering into focus. Current opinion in structural biology 24 29455056
2015 Identification of a Novel Coregulator, SH3YL1, That Interacts With the Androgen Receptor N-Terminus. Molecular endocrinology (Baltimore, Md.) 24 26305679
2009 X-ray crystallography in drug discovery. Methods in molecular biology (Clifton, N.J.) 24 20694684
2024 Gold Nanocluster: A Photoelectric Converter for X-Ray-Activated Chemotherapy. Advanced materials (Deerfield Beach, Fla.) 23 39044607
2022 Reaction dynamics studied via femtosecond X-ray liquidography at X-ray free-electron lasers. Chemical science 23 35974755
2018 Diffracted X-ray Blinking Tracks Single Protein Motions. Scientific reports 23 30504916
1989 Grenz ray-induced nonmelanoma skin cancer. Journal of the American Academy of Dermatology 23 2674211
2020 Mobile Elements in Ray-Finned Fish Genomes. Life (Basel, Switzerland) 21 32992841
1994 Immediate X-ray-inducible responses from mammalian cells. Radiation research 21 8146324
2019 X-ray radiation damage to biological samples: recent progress. Journal of synchrotron radiation 20 31274412
2015 Development and applications of Ray's fluid thioglycollate media for detection and manipulation of Perkinsus spp. pathogens of marine molluscs. Journal of invertebrate pathology 20 26003823
2012 Role of X-ray microtomography in tissue engineering. Annali dell'Istituto superiore di sanita 20 22456010
1998 Major vault protein of electric ray is a phosphoprotein. Neurochemical research 20 9482265
2021 Application of X-ray absorption and X-ray fluorescence techniques to the study of metallodrug action. Current opinion in chemical biology 19 33548877
2018 Identification of allosteric disulfides from labile bonds in X-ray structures. Royal Society open science 19 29515832
2012 Identifying metalloproteins through X-ray fluorescence mapping and mass spectrometry. Metallomics : integrated biometal science 18 22903313
1999 Matching X-ray source, optics and detectors to protein crystallography requirements. Acta crystallographica. Section D, Biological crystallography 18 10531514
2022 FishmiRNA: An Evolutionarily Supported MicroRNA Annotation and Expression Database for Ray-Finned Fishes. Molecular biology and evolution 17 35020925
2015 Quantifying Nucleic Acid Ensembles with X-ray Scattering Interferometry. Methods in enzymology 17 26068738
2014 Stem cell niche irradiation in glioblastoma: providing a ray of hope? CNS oncology 17 25363009
2010 Characterization of Biomaterials by Soft X-Ray Spectromicroscopy. Materials (Basel, Switzerland) 17 28883316
2019 The expanding toolkit for structural biology: synchrotrons, X-ray lasers and cryoEM. IUCrJ 16 30867914
2018 Quantifying X-Ray Fluorescence Data Using MAPS. Journal of visualized experiments : JoVE 16 29553551
2018 Protective potentials of far-infrared ray against neuropsychotoxic conditions. Neurochemistry international 16 30500461
2017 Combining X-ray and neutron crystallography with spectroscopy. Acta crystallographica. Section D, Structural biology 16 28177310
2020 Type I interferons in ray-finned fish (Actinopterygii). Fish & shellfish immunology 15 33387659
2015 DNA damage in children with scoliosis following X-ray exposure. Minerva pediatrica 15 25941131
2009 Expression of Prothymosin alpha during the spermatogenesis of the spotted ray Torpedo marmorata. General and comparative endocrinology 15 19454289
2009 Exploring ribozyme conformational changes with X-ray crystallography. Methods (San Diego, Calif.) 15 19559088
1998 X-ray diffraction of food polysaccharides. Advances in food and nutrition research 15 9597727
2020 Studying viruses using solution X-ray scattering. Biophysical reviews 14 32062837
2019 XRCC2 (X-ray repair cross complementing 2). Atlas of genetics and cytogenetics in oncology and haematology 14 31275435
2017 Evolution and Expression of Tissue Globins in Ray-Finned Fishes. Genome biology and evolution 14 28173090
2017 X-ray crystal structure of a reiterative transcription complex reveals an atypical RNA extension pathway. Proceedings of the National Academy of Sciences of the United States of America 14 28652344
2024 Iterative nanoparticle bioengineering enabled by x-ray fluorescence imaging. Science advances 13 38517973
2020 Voxelotor: A Ray of Hope for Sickle Disease. Cureus 13 32257653
2012 Cyclic X-ray responses in mammalian cells in vitro. 1968. Radiation research 13 22870963
2000 A novel mouse gene, Sh3yl1, is expressed in the anagen hair follicle. The Journal of investigative dermatology 13 10771491
2000 Crystallization and preliminary X-ray analysis of the auxin receptor ABP1. Acta crystallographica. Section D, Biological crystallography 13 11053858
2019 DNA barcoding of coastal ray-finned fishes in Vietnam. PloS one 12 31536551
2019 Characterization of genome-wide variations induced by gamma-ray radiation in barley using RNA-Seq. BMC genomics 12 31664908
2020 History of DNA polymerase β X-ray crystallography. DNA repair 11 33087265
2019 X-ray induces mechanical and heat allodynia in mouse via TRPA1 and TRPV1 activation. Molecular pain 11 31012378
2018 X-ray lasers for structure and dynamics in biology. IUCrJ 11 29755740
2018 Demonstration of femtosecond X-ray pump X-ray probe diffraction on protein crystals. Structural dynamics (Melville, N.Y.) 11 30364211
2017 Nanoparticle-Mediated X-Ray Radiation Enhancement for Cancer Therapy. Methods in molecular biology (Clifton, N.J.) 11 28150217
2016 UV-Visible Absorption Spectroscopy Enhanced X-ray Crystallography at Synchrotron and X-ray Free Electron Laser Sources. Protein and peptide letters 11 26740326
2006 Crystallization and preliminary X-ray diffraction analysis of Nsp15 from SARS coronavirus. Acta crystallographica. Section F, Structural biology and crystallization communications 11 16582498

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