Affinage

YIPF1

Protein YIPF1 · UniProt Q9Y548

Round 2 corrected
Length
306 aa
Mass
34.3 kDa
Annotated
2026-04-28
57 papers in source corpus 1 papers cited in narrative 3 extracted findings

Mechanistic narrative

Synthesis pass · prose summary of the discoveries below

YIPF1 is a medial-/trans-Golgi and trans-Golgi network (TGN)-resident membrane protein that forms a stable complex with YIPF6, which is required for YIPF1 protein stability and correct Golgi localization (PMID:28286305). YIPF1 plays a non-redundant role in Golgi reassembly after brefeldin A-induced disassembly and supports normal intracellular glycan synthesis, as its knockdown specifically delays Golgi reconstitution and reduces glycan levels (PMID:28286305).

Mechanistic history

Synthesis pass · year-by-year structured walk · 3 steps
  1. 2017 Medium

    Determining where YIPF1 resides within the Golgi stack established it as a medial-/trans-Golgi and TGN protein whose behavior during brefeldin A-induced disassembly diverges from canonical Golgi markers, suggesting a specialized trafficking role.

    Evidence Immunofluorescence co-localization with compartment markers and BFA redistribution assay in mammalian cells

    PMID:28286305

    Open questions at the time
    • Localization relies on immunofluorescence in a single cell type; immuno-EM or proximity labeling has not been performed
    • The identity of the cytoplasmic puncta YIPF1 redistributes to after BFA treatment is unresolved
  2. 2017 Medium

    Identifying the YIPF1–YIPF6 complex and the asymmetric dependency (YIPF6 stabilizes YIPF1 but not vice versa) revealed how YIPF1 protein levels and localization are maintained.

    Evidence Co-immunoprecipitation and reciprocal siRNA knockdown with western blot and immunofluorescence

    PMID:28286305

    Open questions at the time
    • Whether the interaction is direct or bridged by other partners has not been tested with recombinant proteins
    • The stoichiometry and topology of the YIPF1–YIPF6 complex are unknown
  3. 2017 Medium

    Demonstrating that YIPF1 knockdown, but not YIPF6 knockdown, delays Golgi reassembly and reduces glycan levels established a specific, non-redundant functional role for YIPF1 in Golgi biogenesis and glycosylation.

    Evidence siRNA knockdown followed by BFA washout Golgi reassembly assay and lectin-based glycan detection in HT-29 cells

    PMID:28286305

    Open questions at the time
    • Findings derive from a single laboratory and cell line; independent replication is lacking
    • The molecular mechanism by which YIPF1 promotes Golgi reassembly is unknown
    • Whether the glycan reduction is a direct consequence of impaired Golgi structure or a separate YIPF1 function is unresolved

Open questions

Synthesis pass · forward-looking unresolved questions
  • The molecular mechanism through which YIPF1 drives Golgi membrane reassembly, its full interactome beyond YIPF6, and its relevance to organismal physiology or disease remain undefined.
  • No structural information exists for YIPF1 or the YIPF1–YIPF6 complex
  • No in vivo (animal model) loss-of-function data are available
  • Whether YIPF1 functions in vesicle tethering, membrane fusion, or cisternal maturation has not been tested

Mechanism profile

Synthesis pass · controlled-vocabulary classification · explore literature graph →
Localization
GO:0005794 Golgi apparatus 3
Pathway
R-HSA-1852241 Organelle biogenesis and maintenance 1
Partners
YIPF6

Evidence

Reading pass · 3 per-paper findings extracted from the source corpus
Year Finding Method Journal Conf PMIDs
2017 YIPF1 (a mammalian homolog of yeast Yif1p) localizes primarily to the medial-/trans-Golgi and partially to the trans-Golgi network (TGN), as determined by immunofluorescence. Upon brefeldin A (BFA) treatment, YIPF1 co-migrated with medial-/trans-Golgi and TGN markers before redistributing to cytoplasmic puncta distinct from canonical Golgi markers. Immunofluorescence staining and brefeldin A treatment in mammalian cells Experimental cell research Medium 28286305
2017 YIPF6 forms stable complexes separately with YIPF1 and with YIPF2; knockdown of YIPF6 reduces YIPF1 and YIPF2 protein levels, indicating that YIPF6 is required for stable expression and Golgi localization of YIPF1. Conversely, YIPF1 knockdown does not affect YIPF6 expression or localization, revealing an asymmetric dependency. Co-immunoprecipitation, siRNA knockdown with western blot and immunofluorescence Experimental cell research Medium 28286305
2017 Knockdown of YIPF1 (but not YIPF6) markedly delayed reassembly of the Golgi apparatus after BFA washout, establishing a specific functional role for YIPF1 in Golgi reassembly. Knockdown of YIPF1 also reduced intracellular glycan levels in HT-29 cells, linking YIPF1 to glycan synthesis. siRNA knockdown followed by BFA washout assay (Golgi reassembly) and lectin-based glycan detection in HT-29 cells Experimental cell research Medium 28286305

Source papers

Stage 0 corpus · 57 papers · ranked by NIH iCite citations
Year Title Journal Citations PMID
2012 Insights into RNA biology from an atlas of mammalian mRNA-binding proteins. Cell 1718 22658674
2002 Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Proceedings of the National Academy of Sciences of the United States of America 1479 12477932
2017 Architecture of the human interactome defines protein communities and disease networks. Nature 1085 28514442
2014 A proteome-scale map of the human interactome network. Cell 977 25416956
2020 A reference map of the human binary protein interactome. Nature 849 32296183
2000 DNA cloning using in vitro site-specific recombination. Genome research 815 11076863
2003 Complete sequencing and characterization of 21,243 full-length human cDNAs. Nature genetics 754 14702039
2021 Dual proteome-scale networks reveal cell-specific remodeling of the human interactome. Cell 705 33961781
2011 Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Briefings in bioinformatics 656 21873635
2004 The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). Genome research 438 15489334
2011 Image-based genome-wide siRNA screen identifies selective autophagy factors. Nature 405 22020285
2000 Systematic subcellular localization of novel proteins identified by large-scale cDNA sequencing. EMBO reports 281 11256614
2004 Transcriptome characterization elucidates signaling networks that control human ES cell growth and differentiation. Nature biotechnology 266 15146197
2012 Genetic polymorphisms of the human PNPLA3 gene are strongly associated with severity of non-alcoholic fatty liver disease in Japanese. PloS one 213 22719876
2002 Muscle-specific RING finger-1 interacts with titin to regulate sarcomeric M-line and thick filament structure and may have nuclear functions via its interaction with glucocorticoid modulatory element binding protein-1. The Journal of cell biology 200 11927605
2001 Toward a catalog of human genes and proteins: sequencing and analysis of 500 novel complete protein coding human cDNAs. Genome research 151 11230166
2008 Systematic identification of mRNAs recruited to argonaute 2 by specific microRNAs and corresponding changes in transcript abundance. PloS one 148 18461144
2017 Mammalian APE1 controls miRNA processing and its interactome is linked to cancer RNA metabolism. Nature communications 99 28986522
2009 Cardiac muscle ring finger-1 increases susceptibility to heart failure in vivo. Circulation research 86 19498199
2020 Interactome Mapping Provides a Network of Neurodegenerative Disease Proteins and Uncovers Widespread Protein Aggregation in Affected Brains. Cell reports 79 32814053
2012 A critical role for muscle ring finger-1 in acute lung injury-associated skeletal muscle wasting. American journal of respiratory and critical care medicine 78 22312013
2012 The phytochrome-interacting vascular plant one-zinc finger1 and VOZ2 redundantly regulate flowering in Arabidopsis. The Plant cell 76 22904146
2017 Systematic protein-protein interaction mapping for clinically relevant human GPCRs. Molecular systems biology 58 28298427
2014 Systematic identification of pathological lamin A interactors. Molecular biology of the cell 56 24623722
2004 High-content screening microscopy identifies novel proteins with a putative role in secretory membrane traffic. Genome research 52 15466293
2019 LncRNAs-directed PTEN enzymatic switch governs epithelial-mesenchymal transition. Cell research 44 30631154
2006 Mice with mutations in Mahogunin ring finger-1 (Mgrn1) exhibit abnormal patterning of the left-right axis. Developmental dynamics : an official publication of the American Association of Anatomists 42 17075880
2019 Hydrogen sulfide regulates muscle RING finger-1 protein S-sulfhydration at Cys44 to prevent cardiac structural damage in diabetic cardiomyopathy. British journal of pharmacology 41 30734268
2009 Mahogunin ring finger-1 (MGRN1) E3 ubiquitin ligase inhibits signaling from melanocortin receptor by competition with Galphas. The Journal of biological chemistry 41 19737927
2013 Prostaglandin E2 induces transcription of skeletal muscle mass regulators interleukin-6 and muscle RING finger-1 in humans. Prostaglandins, leukotrienes, and essential fatty acids 39 23490068
2018 VASCULAR PLANT ONE-ZINC FINGER1 (VOZ1) and VOZ2 Interact with CONSTANS and Promote Photoperiodic Flowering Transition. Plant physiology 38 29507119
2004 From ORFeome to biology: a functional genomics pipeline. Genome research 38 15489336
2022 A BioID-Derived Proximity Interactome for SARS-CoV-2 Proteins. Viruses 37 35337019
2013 Mahogunin ring finger-1 (MGRN1) suppresses chaperone-associated misfolded protein aggregation and toxicity. Scientific reports 35 23756845
2006 The LIFEdb database in 2006. Nucleic acids research 29 16381901
2008 Myeloid cell differentiation in response to calcitriol for expression CD11b and CD14 is regulated by myeloid zinc finger-1 protein downstream of phosphatidylinositol 3-kinase. Journal of leukocyte biology 28 18495781
2004 p68RacGAP is a novel GTPase-activating protein that interacts with vascular endothelial zinc finger-1 and modulates endothelial cell capillary formation. The Journal of biological chemistry 27 14966113
2006 Tumour necrosis factor blockade did not prevent the increase of muscular muscle RING finger-1 and muscle atrophy F-box in arthritic rats. The Journal of endocrinology 25 17065414
2014 Muscle RING finger-1 attenuates IGF-I-dependent cardiomyocyte hypertrophy by inhibiting JNK signaling. American journal of physiology. Endocrinology and metabolism 24 24425758
2023 Assessment of community efforts to advance network-based prediction of protein-protein interactions. Nature communications 22 36949045
2015 Mahogunin Ring Finger-1 (MGRN1), a Multifaceted Ubiquitin Ligase: Recent Unraveling of Neurobiological Mechanisms. Molecular neurobiology 22 26255182
2011 Ectopic expression of the Arabidopsis MINI ZINC FINGER1 and MIF3 genes induces shoot meristems on leaf margins. Plant molecular biology 21 21455630
2014 Non-targeted metabolomics analysis of cardiac Muscle Ring Finger-1 (MuRF1), MuRF2, and MuRF3 in vivo reveals novel and redundant metabolic changes. Metabolomics : Official journal of the Metabolomic Society 19 28325996
2019 Release of transcriptional repression via ErbB2-induced, SUMO-directed phosphorylation of myeloid zinc finger-1 serine 27 activates lysosome redistribution and invasion. Oncogene 18 30622337
2014 VASCULAR PLANT ONE-ZINC FINGER1 and VOZ2 repress the FLOWERING LOCUS C clade members to control flowering time in Arabidopsis. Bioscience, biotechnology, and biochemistry 18 25351333
2018 Let-7 microRNA controls invasion-promoting lysosomal changes via the oncogenic transcription factor myeloid zinc finger-1. Oncogenesis 17 29396433
2011 Cardiac proteasome activity in muscle ring finger-1 null mice at rest and following synthetic glucocorticoid treatment. American journal of physiology. Endocrinology and metabolism 15 21828340
2006 Characterization of Mahogunin Ring Finger-1 expression in mice. Pigment cell research 14 17083490
2022 Hydrogen Sulfide Regulates SERCA2a Ubiquitylation via Muscle RING Finger-1 S-Sulfhydration to Affect Cardiac Contractility in db/db Mice. Cells 13 36359861
2017 YIPF1, YIPF2, and YIPF6 are medial-/trans-Golgi and trans-Golgi network-localized Yip domain family proteins, which play a role in the Golgi reassembly and glycan synthesis. Experimental cell research 13 28286305
2019 Neuroprotective activity of leukemia inhibitory factor is relayed through myeloid zinc finger-1 in a rat model of stroke. Metabolic brain disease 11 30612292
2025 EndoMAP.v1 charts the structural landscape of human early endosome complexes. Nature 6 40437099
2022 The accumulation of muscle RING finger-1 in regenerating myofibers: Implications for muscle repair in immune-mediated necrotizing myopathy. Frontiers in neurology 6 36504647
2014 Muscle RING finger-1 promotes a maladaptive phenotype in chronic hypoxia-induced right ventricular remodeling. PloS one 6 24811453
2019 Myeloid zinc finger-1 regulates expression of cancer-associated fibroblast and cancer stemness profiles in breast cancer. Surgery 4 31301870
2026 Muscle RING finger-1 facilitates skeletal muscle regeneration via regulating myoblast proliferation and differentiation. Journal of translational medicine 0 41606616
2018 Muscle-specific regulation of right ventricular transcriptional responses to chronic hypoxia-induced hypertrophy by the muscle ring finger-1 (MuRF1) ubiquitin ligase in mice. BMC medical genetics 0 30241514