PaperBLAST
PaperBLAST Hits for 86 a.a. (AAGSKALGSA...)
Show query sequence
>86 a.a. (AAGSKALGSA...)
AAGSKALGSAQSRGEKRTAHNAIEKRYRSSINDKIVELKDLVVGTEAKLNKSAVLRKAID
YIRFLQHSNQKLKQENLTLRSAHKSK
Running BLASTp...
Found 103 similar proteins in the literature:
SRBP1_MOUSE / Q9WTN3 Sterol regulatory element-binding protein 1; SREBP-1; Sterol regulatory element-binding transcription factor 1 from Mus musculus (Mouse) (see 17 papers)
100% identity, 8% coverage
- function: [Sterol regulatory element-binding protein 1]: Precursor of the transcription factor form (Processed sterol regulatory element- binding protein 1), which is embedded in the endoplasmic reticulum membrane (PubMed:11782483, PubMed:12855691, PubMed:19244231). Low sterol concentrations promote processing of this form, releasing the transcription factor form that translocates into the nucleus and activates transcription of genes involved in cholesterol biosynthesis and lipid homeostasis (PubMed:11782483, PubMed:12855691, PubMed:16100574, PubMed:19244231).
function: [Processed sterol regulatory element-binding protein 1]: Key transcription factor that regulates expression of genes involved in cholesterol biosynthesis and lipid homeostasis (PubMed:17290224, PubMed:19244231, PubMed:21459323, PubMed:9329978, PubMed:9784493). Binds to the sterol regulatory element 1 (SRE-1) (5'-ATCACCCCAC-3') (By similarity). Has dual sequence specificity binding to both an E-box motif (5'-ATCACGTGA-3') and to SRE-1 (5'-ATCACCCCAC-3') (By similarity). Regulates the promoters of genes involved in cholesterol biosynthesis and the LDL receptor (LDLR) pathway of sterol regulation (PubMed:17290224, PubMed:19244231, PubMed:21459323, PubMed:9329978, PubMed:9784493).
function: [Isoform SREBP-1A]: Isoform expressed only in select tissues, which has higher transcriptional activity compared to SREBP-1C (PubMed:12855691, PubMed:21531336). Able to stimulate both lipogenic and cholesterogenic gene expression (PubMed:8833906). Has a role in the nutritional regulation of fatty acids and triglycerides in lipogenic organs such as the liver (PubMed:12855691, PubMed:9062341). Required for innate immune response in macrophages by regulating lipid metabolism (PubMed:21531336).
function: [Isoform SREBP-1C]: Predominant isoform expressed in most tissues, which has weaker transcriptional activity compared to isoform SREBP-1A (PubMed:12855691, PubMed:21531336). Primarily controls expression of lipogenic gene (PubMed:8833906, PubMed:9062341). Strongly activates global lipid synthesis in rapidly growing cells (PubMed:8833906, PubMed:9062341).
subunit: [Sterol regulatory element-binding protein 1]: Forms a tight complex with SCAP, the SCAP-SREBP complex, in the endoplasmic reticulum membrane and the Golgi apparatus (By similarity). Interacts with PAQR3; the interaction anchors the SCAP-SREBP complex to the Golgi apparatus in low cholesterol conditions (PubMed:26311497).
subunit: [Processed sterol regulatory element-binding protein 1]: Efficient DNA binding of the soluble transcription factor fragment requires dimerization with another bHLH protein (By similarity). Interacts with CEBPA, the interaction produces a transcriptional synergy (PubMed:17290224). Interacts with LMNA (PubMed:11929849).
disruption phenotype: Mice show high embryonic lethality around day 11 dpc (PubMed:9329978). Surviving mice show a 2-3-fold increase in processed Srebpf2 protein in liver nuclei, 3-fold increase in cholesterol synthesis and 50% increase in cholesterol content of the liver (PubMed:9329978).
disruption phenotype: [Isoform SREBP-1A]: Mice lacking isoform SREBP-1A are resistant to pro-inflammatory toxic shock (PubMed:21531336). Macrophages challenged with bacterial lipopolysaccharide fail to activate lipogenesis as well as hallmarks of inflammasome functions, activation of caspase-1 and secretion of IL1B (PubMed:21531336).
disruption phenotype: [Isoform SREBP-1C]: Mice lacking isoform SREBP-1C show a lack of up-regulation of several lipogenic enzymes in response to high insulin or LXR activation. - Protein kinase A catalytic-α and catalytic-β proteins have nonredundant regulatory functions
Raghuram, American journal of physiology. Renal physiology 2020 (secret) - Computational prediction of membrane-tethered transcription factors
Zupicich, Genome biology 2001 - “...predicted TMTFs not shown are: Luman (Q9UE77 Homo sapiens ), SREBP-1 (Q60416 Cricetulus griseus , Q9WTN3 Mus musculus , P56720 Rattus norvegicus , Q9XX00 Caenorhabditis elegans ), SREBP-2 (Q9UH04 H. sapiens , Q60429 C. griseus ), and AFLR Reg (P43651 Aspergillus parasiticus ). Open reading frames...”
NP_001300908 sterol regulatory element-binding protein 1 isoform b from Mus musculus
100% identity, 8% coverage
SRBP1_RAT / P56720 Sterol regulatory element-binding protein 1; SREBP-1; Adipocyte determination- and differentiation-dependent factor 1; ADD1; Sterol regulatory element-binding transcription factor 1 from Rattus norvegicus (Rat) (see 2 papers)
NP_001263636 sterol regulatory element-binding protein 1 isoform 1 precursor from Rattus norvegicus
99% identity, 8% coverage
- function: [Sterol regulatory element-binding protein 1]: Precursor of the transcription factor form (Processed sterol regulatory element- binding protein 1), which is embedded in the endoplasmic reticulum membrane (By similarity). Low sterol concentrations promote processing of this form, releasing the transcription factor form that translocates into the nucleus and activates transcription of genes involved in cholesterol biosynthesis and lipid homeostasis (By similarity).
function: [Processed sterol regulatory element-binding protein 1]: Key transcription factor that regulates expression of genes involved in cholesterol biosynthesis and lipid homeostasis (By similarity). Binds to the sterol regulatory element 1 (SRE-1) (5'-ATCACCCCAC-3') (PubMed:7739539). Has dual sequence specificity binding to both an E- box motif (5'-ATCACGTGA-3') and to SRE-1 (5'-ATCACCCCAC-3') (By similarity). Regulates the promoters of genes involved in cholesterol biosynthesis and the LDL receptor (LDLR) pathway of sterol regulation (By similarity).
function: [Isoform SREBP-1A]: Isoform expressed only in select tissues, which has higher transcriptional activity compared to SREBP-1C (By similarity). Able to stimulate both lipogenic and cholesterogenic gene expression (By similarity). Has a role in the nutritional regulation of fatty acids and triglycerides in lipogenic organs such as the liver. Required for innate immune response in macrophages by regulating lipid metabolism (By similarity).
function: [Isoform SREBP-1C]: Predominant isoform expressed in most tissues, which has weaker transcriptional activity compared to isoform SREBP-1A (By similarity). Primarily controls expression of lipogenic gene (By similarity). Strongly activates global lipid synthesis in rapidly growing cells (By similarity).
subunit: [Processed sterol regulatory element-binding protein 1]: Efficient DNA binding of the soluble transcription factor fragment requires dimerization with another bHLH protein (By similarity). Interacts with CEBPA, the interaction produces a transcriptional synergy. Interacts with LMNA (By similarity).
subunit: [Sterol regulatory element-binding protein 1]: Forms a tight complex with SCAP, the SCAP-SREBP complex, in the endoplasmic reticulum membrane and the Golgi apparatus. Interacts with PAQR3; the interaction anchors the SCAP-SREBP complex to the Golgi apparatus in low cholesterol conditions. - Adrenarche-accompanied rise of adrenal sex steroid precursors prevents NAFLD in Young Female rats by converting into active androgens and inactivating hepatic Srebf1 signaling.
Li, BMC genomics 2024 - GeneRIF: Adrenarche-accompanied rise of adrenal sex steroid precursors prevents NAFLD in Young Female rats by converting into active androgens and inactivating hepatic Srebf1 signaling.
- Lanosterol Synthase Prevents EMT During Lens Epithelial Fibrosis Via Regulating SREBP1.
Ma, Investigative ophthalmology & visual science 2023 - GeneRIF: Lanosterol Synthase Prevents EMT During Lens Epithelial Fibrosis Via Regulating SREBP1.
- SIRT6 regulates SREBP1c-induced glucolipid metabolism in liver and pancreas via the AMPKα-mTORC1 pathway.
Bian, Laboratory investigation; a journal of technical methods and pathology 2022 (PubMed)- GeneRIF: SIRT6 regulates SREBP1c-induced glucolipid metabolism in liver and pancreas via the AMPKalpha-mTORC1 pathway.
- Investigation of the hepatic mTOR/S6K1/SREBP1 signalling pathway in rats at different ages: from neonates to adults.
Yalçın, Molecular biology reports 2021 (PubMed)- GeneRIF: Investigation of the hepatic mTOR/S6K1/SREBP1 signalling pathway in rats at different ages: from neonates to adults.
- Isoquercetin regulates SREBP-1C via AMPK pathway in skeletal muscle to exert antihyperlipidemic and anti-inflammatory effects in STZ induced diabetic rats.
Jayachandran, Molecular biology reports 2020 (PubMed)- GeneRIF: This study was aimed to evaluate the efficacy of isoquercetin on the regulation of lipid metabolism, sterol regulatory element binding transcription factor 1 (SREBP-1C), adenosine monophosphate-activated protein kinase (AMPK), and inflammatory markers in diabetic rats.
- Oral solution of fructose promotes SREBP-1c high-expression in the hypothalamus of Wistar rats.
Batista, Nutritional neuroscience 2019 (PubMed)- GeneRIF: Oral solution of fructose promotes SREBP-1c high-expression in the hypothalamus of Wistar rats. Dietary fructose can change important lipogenic and inflammatory factors in the hypothalamus of rats and it leads to regulation of transcription factors before changes in body mass are evident.
- Lipotoxicity reduces β cell survival through islet stellate cell activation regulated by lipid metabolism-related molecules.
Zhou, Experimental cell research 2019 (PubMed)- GeneRIF: Lipotoxicity reduced the expression of lipid metabolism-related molecules in ISCs treated with PA, especially SREBP-1c. Overexpression of SREBP-1c in ISCs improved islet viability and insulin secretion in co-cultures.
- Eicosapentaenoic Acid Improves Polycystic Ovary Syndrome in Rats via Sterol Regulatory Element-Binding Protein 1 (SREBP-1)/Toll-Like Receptor 4 (TLR4) Pathway.
Wang, Medical science monitor : international medical journal of experimental and clinical research 2018 - GeneRIF: Expression levels of SREBP1 and TLR4 were significantly deceased after EPA treatment. EPA can improve PCOS through the SREBP1/TLR4 pathway.
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- Palmitate-induced lipotoxicity alters acetylation of multiple proteins in clonal β cells and human pancreatic islets
Ciregia, Scientific reports 2017 - “...5 P52873 Pyruvate carboxylase PYC Pc 76 110 130 6.4 6.3 0.700.1 4.360.8 0.002 6 P56720 Sterol regulatory element-binding protein 1 SRBP1 Srebf1 45 100 120 6.2 8.4 1.250.3 2.110.4 0.038 7 Q9ER34 Aconitate hydratase ACON Aco2 74 85 85 7.0 7.9 2.120.4 3.210.6 0.035 8...”
- Proteomic Analysis of Liver Proteins in a Rat Model of Chronic Restraint Stress-Induced Depression.
Li, BioMed research international 2017 - “...P26819 1 1.6 Beta-adrenergic receptor kinase 2 P26819 1 1.6 Sterol regulatory element-binding protein 1 P56720 1 1.6 Cystic fibrosis transmembrane conductance regulator P34158 0.9 1.6 Uncharacterized protein C4orf51 homolog Q4V7B2 1 1.6 60S ribosomal protein L6 P21533 1 1.7 60S ribosomal protein L35 P17078 1...”
- Mitochondrial complex I defect and increased fatty acid oxidation enhance protein lysine acetylation in the diabetic heart.
Vazquez, Cardiovascular research 2015 - Computational prediction of membrane-tethered transcription factors
Zupicich, Genome biology 2001 - “...are: Luman (Q9UE77 Homo sapiens ), SREBP-1 (Q60416 Cricetulus griseus , Q9WTN3 Mus musculus , P56720 Rattus norvegicus , Q9XX00 Caenorhabditis elegans ), SREBP-2 (Q9UH04 H. sapiens , Q60429 C. griseus ), and AFLR Reg (P43651 Aspergillus parasiticus ). Open reading frames (ORFs) for O65420, O43989,...”
F7E4A8 Sterol regulatory element-binding protein 1 from Macaca mulatta
94% identity, 7% coverage
Q60416 Sterol regulatory element-binding protein 1 from Cricetulus griseus
97% identity, 8% coverage
- Computational prediction of membrane-tethered transcription factors
Zupicich, Genome biology 2001 - “...by half. Orthologs of predicted TMTFs not shown are: Luman (Q9UE77 Homo sapiens ), SREBP-1 (Q60416 Cricetulus griseus , Q9WTN3 Mus musculus , P56720 Rattus norvegicus , Q9XX00 Caenorhabditis elegans ), SREBP-2 (Q9UH04 H. sapiens , Q60429 C. griseus ), and AFLR Reg (P43651 Aspergillus parasiticus...”
SRBP1_HUMAN / P36956 Sterol regulatory element-binding protein 1; SREBP-1; Class D basic helix-loop-helix protein 1; bHLHd1; Sterol regulatory element-binding transcription factor 1 from Homo sapiens (Human) (see 12 papers)
NP_004167 sterol regulatory element-binding protein 1 isoform 2 from Homo sapiens
93% identity, 7% coverage
- function: [Sterol regulatory element-binding protein 1]: Precursor of the transcription factor form (Processed sterol regulatory element- binding protein 1), which is embedded in the endoplasmic reticulum membrane (PubMed:32322062). Low sterol concentrations promote processing of this form, releasing the transcription factor form that translocates into the nucleus and activates transcription of genes involved in cholesterol biosynthesis and lipid homeostasis (By similarity).
function: [Processed sterol regulatory element-binding protein 1]: Key transcription factor that regulates expression of genes involved in cholesterol biosynthesis and lipid homeostasis (PubMed:12177166, PubMed:32322062, PubMed:8402897). Binds to the sterol regulatory element 1 (SRE-1) (5'-ATCACCCCAC-3'). Has dual sequence specificity binding to both an E-box motif (5'-ATCACGTGA-3') and to SRE-1 (5'- ATCACCCCAC-3') (PubMed:12177166, PubMed:8402897). Regulates the promoters of genes involved in cholesterol biosynthesis and the LDL receptor (LDLR) pathway of sterol regulation (PubMed:12177166, PubMed:32322062, PubMed:8402897).
function: [Isoform SREBP-1A]: Isoform expressed only in select tissues, which has higher transcriptional activity compared to SREBP-1C (By similarity). Able to stimulate both lipogenic and cholesterogenic gene expression (PubMed:12177166, PubMed:32497488). Has a role in the nutritional regulation of fatty acids and triglycerides in lipogenic organs such as the liver (By similarity). Required for innate immune response in macrophages by regulating lipid metabolism (By similarity).
function: [Isoform SREBP-1C]: Predominant isoform expressed in most tissues, which has weaker transcriptional activity compared to isoform SREBP-1A (By similarity). Primarily controls expression of lipogenic gene (PubMed:12177166). Strongly activates global lipid synthesis in rapidly growing cells (By similarity).
function: [Isoform SREBP-1aDelta]: The absence of Golgi proteolytic processing requirement makes this isoform constitutively active in transactivation of lipogenic gene promoters.
function: [Isoform SREBP-1cDelta]: The absence of Golgi proteolytic processing requirement makes this isoform constitutively active in transactivation of lipogenic gene promoters.
subunit: [Sterol regulatory element-binding protein 1]: Forms a tight complex with SCAP, the SCAP-SREBP complex, in the endoplasmic reticulum membrane and the Golgi apparatus (PubMed:32322062). Interacts with PAQR3; the interaction anchors the SCAP-SREBP complex to the Golgi apparatus in low cholesterol conditions (PubMed:26311497).
subunit: [Processed sterol regulatory element-binding protein 1]: Efficient DNA binding of the soluble transcription factor fragment requires dimerization with another bHLH protein (PubMed:8402897). Interacts with CEBPA, the interaction produces a transcriptional synergy (By similarity). Interacts with LMNA (By similarity). - Association of adipocyte size and SREBP-1c in visceral and subcutaneous adipose tissue in non-obese type 2 diabetes mellitus.
Adhikary, Endocrine 2024 (PubMed)- GeneRIF: Association of adipocyte size and SREBP-1c in visceral and subcutaneous adipose tissue in non-obese type 2 diabetes mellitus.
- FAS/SREBP-1c contributes to colorectal carcinogenesis through calcium signaling pathway and cAMP signaling pathway.
Xu, Asian journal of surgery 2024 (PubMed)- GeneRIF: FAS/SREBP-1c contributes to colorectal carcinogenesis through calcium signaling pathway and cAMP signaling pathway.
- Active AKT2 stimulation of SREBP1/SCD1-mediated lipid metabolism boosts hepatosteatosis and cancer.
Huang, Translational research : the journal of laboratory and clinical medicine 2024 (PubMed)- GeneRIF: Active AKT2 stimulation of SREBP1/SCD1-mediated lipid metabolism boosts hepatosteatosis and cancer.
- The Role of SCAP/SREBP as Central Regulators of Lipid Metabolism in Hepatic Steatosis.
Chandrasekaran, International journal of molecular sciences 2024 - GeneRIF: The Role of SCAP/SREBP as Central Regulators of Lipid Metabolism in Hepatic Steatosis.
- EXO1/P53/SREBP1 axis-regulated lipid metabolism promotes prostate cancer progression.
Wang, Journal of translational medicine 2024 - GeneRIF: EXO1/P53/SREBP1 axis-regulated lipid metabolism promotes prostate cancer progression.
- Expression and correlation analysis of silent information regulator 1 (SIRT1), sterol regulatory element-binding protein-1 (SREBP1), and pyroptosis factor in gestational diabetes mellitus.
Han, The journal of maternal-fetal & neonatal medicine : the official journal of the European Association of Perinatal Medicine, the Federation of Asia and Oceania Perinatal Societies, the International Society of Perinatal Obstetricians 2024 (PubMed)- GeneRIF: Expression and correlation analysis of silent information regulator 1 (SIRT1), sterol regulatory element-binding protein-1 (SREBP1), and pyroptosis factor in gestational diabetes mellitus.
- SREBP-1-mediated lipogenesis confers resistance to ferroptosis and improves endothelial injury.
Wang, FASEB journal : official publication of the Federation of American Societies for Experimental Biology 2024 (PubMed)- GeneRIF: SREBP-1-mediated lipogenesis confers resistance to ferroptosis and improves endothelial injury.
- A gain-of-function variant in SREBF1 causes generalized skin hyperpigmentation with congenital cataracts.
Wang, The British journal of dermatology 2024 (PubMed)- GeneRIF: A gain-of-function variant in SREBF1 causes generalized skin hyperpigmentation with congenital cataracts.
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- Machine Learning-Driven Biomarker Discovery for Skeletal Complications in Type 1 Gaucher Disease Patients
Cebolla, International journal of molecular sciences 2024 - “...MCL1 Q07820 No No PDGFB P01127 70.26 67.18 79.20 1.62 10 135 Yes No SREBF1 P36956 No No IL1R2 P27930 70.77 72.15 67.66 5.66 10 138 Yes No MCL1 Q07820 No No PDGFB P01127 70.97 71.92 68.80 2.29 10 140 Yes No IL1R2 P27930 Yes No...”
- “...MLC1 Q07820 No No PDGFB P01127 76.26 79.82 70.29 8.24 10 227 Yes No SREBF1 P36956 No No MCL1 Q07820 No No PDGFB P01127 76.54 77.86 74.17 2.31 10 228 Yes No CXCL8 P10145 Yes No MCL1 Q07820 No No PDGFB P01127 77.26 79.96 72.74 2.15...”
- Insulin signaling and pharmacology in humans and in corals
Murthy, PeerJ 2024 - “...(SOS2_HUMAN) Chardin et al. (1993) Umikawa et al. (1999) SREBP-1c Sterol regulatory element-binding protein 1 P36956 (SRBP1_HUMAN) Yokoyama et al. (1993) TSC1 Hamartin Q92574 (TSC1_HUMAN) Tee et al. (2002) TSC2 Tuberin P49815 (TSC2_HUMAN) Insulin/somatostatin ERK1/2 Mitogen-activated protein kinase 3 Mitogen-activated protein kinase 1 P27361 (MK03_HUMAN) P28482...”
- “...of sevenless homolog 2 1,332 pdam_00007801 100 1.00E192 3.00E196 1,077 81,095 41,094 (1,252) 56 SREBP-1c P36956 Sterol regulatory element-binding protein 1 1,147 pdam_00001678 100 3.00E166 5.00E170 822 2921,144 4111,296 (1,297) 42 TSC1 Q92574 Hamartin 1,164 pdam_00004350 100 6.00E144 1.00E147 720 7771 12845 (857) 34 TSC2 P49815...”
- Potential Targets and Mechanisms of Bitter Almond-Licorice for COVID-19 Treatment Based on Network Pharmacology and Molecular Docking
Hong, Current pharmaceutical design 2023 - “...P29474 NOS3 11 Q04206 RELA 45 P04035 HMGCR 79 P01137 TGFB1 12 P47989 XDH 46 P36956 SREBF1 80 P60568 IL2 13 P78380 OLR1 47 P33527 ABCC1 81 P00750 PLAT 14 P00742 F10 48 Q15848 ADIPOQ 82 P07204 THBD 15 P22303 ACHE 49 P17174 GOT1 83 P05121...”
- Identification of perioperative neurocognitive dysfunction biomarkers in cerebrospinal fluid with quantitative proteomic approach in patients undergoing transurethral resection of prostate with combined spinal and epidural analgesia
Luo, Medicine 2022 - “...393 1.29 1.61 Apolipoprotein D P36955 61 P36955 Up 704 1.34 1.62 Pigment epithelium-derived factor P36956 62 P36956 Up 2288 1.50 2.04 Sterol regulatory element-binding protein 1 P01009 63 P01009 Up 856 1.23 1.96 Alpha-1-antitrypsin P61769 64 P61769 Up 1.78 2.20 Beta-2-microglobulin Q9Y6V0 65 Q9Y6V0 Up...”
- Exploring the mechanism of Alisma orientale for the treatment of pregnancy induced hypertension and potential hepato-nephrotoxicity by using network pharmacology, network toxicology, molecular docking and molecular dynamics simulation
Liao, Frontiers in pharmacology 2022 - “...68 Nitric oxide synthase, inducible NOS2 P35228 Treat 146 Sterol regulatory element-binding protein 1 SREBF1 P36956 Toxic 69 Nuclear receptor subfamily 1 group I member 2 NR1I2 O75469 Treat 147 Tyrosine-protein kinase SYK SYK P43405 Toxic 70 cAMP-specific 3,5-cyclic phosphodiesterase 4D PDE4D Q08499 Treat 148 Transforming...”
- Degron masking outlines degronons, co-degrading functional modules in the proteome.
Guharoy, Communications biology 2022 - “...after R172) UBR1 (Q8IWV7) b ATE1 (O95260), ESPL1 (Q14674) Sterol regulatory element-binding protein 1 (SREBF1, P36956) 425 LTPPPS 430 FBXW7 (Q969H0) GSK3B (P49841), PLK1 (P53350), b CDK1 (P06493), b CCNB1 (P14635) a Primary degron overlapping motifs were identified from the ELM database (annotated in Supplementary Data...”
- Integrated Network Pharmacology and Gut Microbiota Study on the Mechanism of Huangqin Decoction in Treatment Diabetic Enteritis.
Xu, Applied bionics and biomechanics 2022 - “...protein kinase 3 P11166 140 LDLR Low-density lipoprotein receptor P53779 141 HMGCR 3-Hydroxy-3-methylglutaryl-coenzyme A reductase P36956 142 GSR Glutathione reductase, mitochondrial P55157 143 CYP19A1 Aromatase P27361 144 BAD Bcl2-associated agonist of cell death P01130 145 APOB Apolipoprotein B-100 P04035 146 ADIPOQ Adiponectin P00390 147 CAT Catalase...”
- Target Deconvolution of Fenofibrate in Nonalcoholic Fatty Liver Disease Using Bioinformatics Analysis
Mahmoudi, BioMed research international 2021 - “...0.376 0.4 0.884 PPARA Q07869 Peroxisome proliferator-activated receptor alpha Nuclear receptor 0.432 0.4 0.995 SREBF1 P36956 Sterol regulatory element binding transcription factor 1 Plasma protein, transcription factor 0.518 0.38 0.962 LDLR P01130 Low-density lipoprotein receptor Plasma protein 0.449 0.37 0.816 GSTP1 P09211 Glutathione S-transferase pi 1...”
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LOC108635517 LOW QUALITY PROTEIN: sterol regulatory element-binding protein 1-like from Capra hircus
94% identity, 10% coverage
NP_001272684 sterol regulatory element-binding protein 1 from Capra hircus
94% identity, 7% coverage
NP_001106773 sterol regulatory element-binding protein 1 from Bos taurus
93% identity, 7% coverage
- U2AF65 enhances milk synthesis and growth of bovine mammary epithelial cells by positively regulating the mTOR-SREBP-1c signalling pathway.
Yu, Cell biochemistry and function 2019 (PubMed)- GeneRIF: U2AF65 functions as a positive regulator of milk synthesis in and proliferation of bovine mammary epithelial cells via the mTOR-SREBP-1c signalling pathway.
- Epigenetic mechanisms contribute to decrease stearoyl-CoA desaturase 1 expression in the liver of dairy cows after prolonged feeding of high-concentrate diet.
Xu, Journal of dairy science 2018 (PubMed)- GeneRIF: Expression of SCD1 was downregulated through reduced transcription and abundance of the transcription factor sterol regulatory element-binding protein 1 (SREBP1c).This effect was augmented by local chromatin tightening and DNA methylation at and around the SREBP1c binding site in the SCD1 promoter
- FABP5 is a critical regulator of methionine- and estrogen-induced SREBP-1c gene expression in bovine mammary epithelial cells.
Li, Journal of cellular physiology 2018 (PubMed)- GeneRIF: We further uncovered that fatty acids are needed for FABP5-mediated SREBP-1c gene expression. Thus, our study demonstrates that FABP5 is a critical regulator of Met- and E2-induced SREBP-1c gene expression leading to milk fat synthesis
- Stearoyl-CoA desaturase 1 expression is downregulated in liver and udder during E. coli mastitis through enhanced expression of repressive C/EBP factors and reduced expression of the inducer SREBP1A.
Xu, BMC molecular biology 2016 - GeneRIF: SREBP1a activated while C/EBP factors downregulated the activity of the SCD1 promoter.
- Obesity-driven prepartal hepatic lipid accumulation in dairy cows is associated with increased CD36 and SREBP-1 expression.
Prodanović, Research in veterinary science 2016 (PubMed)- GeneRIF: These results suggest that increased expression of hepatic CD36 and SREBP-1 is relevant in the obesity-driven lipid accumulation in the liver of dairy cows during late gestation.
- SREBP-1c overactivates ROS-mediated hepatic NF-κB inflammatory pathway in dairy cows with fatty liver.
Li, Cellular signalling 2015 (PubMed)- GeneRIF: Hepatic SREBP-1c-mediated lipid synthesis and the NF-kappaB inflammatory pathway were both overinduced in cows with fatty liver.
- SREBP-1c gene silencing can decrease lipid deposits in bovine hepatocytes cultured in vitro.
Deng, Cellular physiology and biochemistry : international journal of experimental cellular physiology, biochemistry, and pharmacology 2014 (PubMed)- GeneRIF: data suggest that low SREBP-1c expression can decrease lipid synthesis, increase lipid oxidation, and decrease the TG and VLDL content in bovine hepatocytes
- Function of SREBP1 in the milk fat synthesis of dairy cow mammary epithelial cells.
Li, International journal of molecular sciences 2014 - GeneRIF: SREBP1 was found to be a key positive regulator of milk fat synthesis and was shown to be regulated by stearic acid and serum.
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NP_999322 sterol regulatory element-binding protein 1 from Sus scrofa
O97676 Sterol regulatory element-binding protein 1 from Sus scrofa
91% identity, 7% coverage
- Identification of a novel human long non-coding RNA that regulates hepatic lipid metabolism by inhibiting SREBP-1c.
Li, International journal of biological sciences 2017 - GeneRIF: In vivo, the data of established transgenic animals showed that mice with lncHR1 expression had less hepatic expression of SREBP-1c, FAS, Acetyl-CoA carboxylase alpha (ACCalpha), and less hepatic and plasma TG after being fed a high-fat diet.
- The ACACA and SREBF1 genes are promising markers for pig carcass and performance traits, but not for fatty acid content in the longissimus dorsi muscle and adipose tissue.
Stachowiak, Meat science 2013 (PubMed)- GeneRIF: Polymorphisms of the ACACA and SREBF1 genes are promising markers for pig carcass and performance traits.
- Sterol regulatory element binding transcription factor 1 expression and genetic polymorphism significantly affect intramuscular fat deposition in the longissimus muscle of Erhualian and Sutai pigs.
Chen, Journal of animal science 2008 (PubMed)- GeneRIF: SREBF1 might play an important role in regulation of muscle fat deposition during postnatal growth of pigs.
- [Distributions of polymorphism of ADD1, MC4R, H-FABP gene, associated with IMF and BF in 3 populations in pig].
Li, Yi chuan = Hereditas 2006 (PubMed)- GeneRIF: Results of associated analysis show that the polymorphism of ADD1 gene was associated traits of Intramuscular fat content (IMF) and back fat thickness (BF).
- Composition and physiological functions of the porcine colostrum.
Inoue, Animal science journal = Nihon chikusan Gakkaiho 2021 - “...subunit 22 D2WKD8 Sodium/potassiumtransporting ATPase subunit alpha2 0.03 37 B8Y466 SRSF protein kinase 3 21 O97676 Sterol regulatory elementbinding protein 1 27 A5GFT6 Teashirt homolog 2 33 P15203 Transforming growth factor beta3 20 P50390 Transthyretin 0.54 114 P42639 Tropomyosin alpha1 chain 22 A1Y2K1 Tyrosineprotein kinase Fyn...”
1am9C / P36956 Human srebp-1a bound to ldl receptor promoter (see paper)
95% identity, 88% coverage
NP_989457 sterol regulatory element-binding protein 1 from Gallus gallus
83% identity, 8% coverage
XP_015149594 sterol regulatory element-binding protein 1 isoform X2 from Gallus gallus
83% identity, 7% coverage
- Confined housing system increased abdominal and subcutaneous fat deposition and gene expressions of carbohydrate response element-binding protein and sterol regulatory element-binding protein 1 in chicken.
Li, Genetics and molecular research : GMR 2015 (PubMed)- GeneRIF: increased fat deposition in caged chicken is probably induced by increased gene expression of ChREBP and SREBP1 in the liver
- Expression profiles of key transcription factors involved in lipid metabolism in Beijing-You chickens.
Fu, Gene 2014 (PubMed)- GeneRIF: SREBP1 involved in lipid metabolism in Beijing-You chickens.
- Transdifferentiation of fibroblasts into adipocyte-like cells by chicken adipogenic transcription factors.
Liu, Comparative biochemistry and physiology. Part A, Molecular & integrative physiology 2010 (PubMed)- GeneRIF: The result showed SREBP-1 was sufficient to trigger the adipogenic program in chicken embryo fibroblasts, as demonstrated by accumulation of cytoplasmic lipid droplets and expression of the adipocyte marker gene.
- [Chicken SREBP1 gene antiserums preparation and its tissue expression characterization].
Wang, Xi bao yu fen zi mian yi xue za zhi = Chinese journal of cellular and molecular immunology 2010 (PubMed)- GeneRIF: SREBP1 was highly expressed in abdominal adipose tissue of broilers.
- The effect of feed restriction on expression of hepatic lipogenic genes in broiler chickens and the function of SREBP1.
Wang, Comparative biochemistry and physiology. Part B, Biochemistry & molecular biology 2009 (PubMed)- GeneRIF: Data show that sterol regulatory element-binding protein 1 (SREBP1) has the ability to regulate the expression of acetyl coenzyme A carboxylase(alpha).
- Role of SREBP-1 in the development of parasympathetic dysfunction in the hearts of type 1 diabetic Akita mice.
Park, Circulation research 2009 - GeneRIF: There is a molecular mechanism for insulin regulation of GIRK1 expression and parasympathetic response via SREBP-1, which might play a role in the pathogenesis of diabetic autonomic neuropathy in response to insulin deficiency in the diabetic heart.
- Modulation of sterol regulatory element binding protein-2 in response to rapid follicle development in chickens.
Seol, Comparative biochemistry and physiology. Part B, Biochemistry & molecular biology 2007 (PubMed)- GeneRIF: SREBP-1 immunoreactive protein levels were only slightly changed over all stage of follicle development.
- The mechanism mediating the activation of acetyl-coenzyme A carboxylase-alpha gene transcription by the liver X receptor agonist T0-901317.
Talukdar, Journal of lipid research 2006 (PubMed)- GeneRIF: T0-901317 increases hepatic ACC alpha transcription by directly activating LXR*retinoid X receptor (RXR) heterodimers and by increasing the activity of an accessory transcription factor (SREBP-1) that enhances ligand induced-LXR*RXR activity
NP_001098599 sterol regulatory element-binding protein 1 from Danio rerio
81% identity, 7% coverage
SRBP2_DANRE / A3KNA7 Sterol regulatory element-binding protein 2; SREBP-2; Sterol regulatory element-binding transcription factor 2 from Danio rerio (Zebrafish) (Brachydanio rerio) (see paper)
66% identity, 7% coverage
- function: [Sterol regulatory element-binding protein 2]: Precursor of the transcription factor form (Processed sterol regulatory element- binding protein 2), which is embedded in the endoplasmic reticulum membrane. Low sterol concentrations promote processing of this form, releasing the transcription factor form that translocates into the nucleus and activates transcription of genes involved in cholesterol biosynthesis.
function: [Processed sterol regulatory element-binding protein 2]: Key transcription factor that regulates expression of genes involved in cholesterol biosynthesis. Binds to the sterol regulatory element 1 (SRE-1) (5'-ATCACCCCAC-3'). Has dual sequence specificity binding to both an E-box motif (5'-ATCACGTGA-3') and to SRE-1 (5'-ATCACCCCAC-3'). Regulates transcription of genes related to cholesterol synthesis pathway (By similarity). Activated by mediated cholesterol efflux, transactivates NOTCH and promotes hematopoietic stem and progenitor cell emergence (PubMed:30705153).
subunit: [Sterol regulatory element-binding protein 2]: Forms a tight complex with scap, the SCAP-SREBP complex, in the endoplasmic reticulum membrane.
subunit: [Processed sterol regulatory element-binding protein 2]: Homodimer; efficient DNA binding of the soluble transcription factor fragment requires dimerization with another bHLH protein.
SRBP2_CRIGR / Q60429 Sterol regulatory element-binding protein 2; SREBP-2; Sterol regulatory element-binding transcription factor 2 from Cricetulus griseus (Chinese hamster) (Cricetulus barabensis griseus) (see 2 papers)
70% identity, 6% coverage
- function: [Sterol regulatory element-binding protein 2]: Precursor of the transcription factor form (Processed sterol regulatory element- binding protein 2), which is embedded in the endoplasmic reticulum membrane. Low sterol concentrations promote processing of this form, releasing the transcription factor form that translocates into the nucleus and activates transcription of genes involved in cholesterol biosynthesis.
function: [Processed sterol regulatory element-binding protein 2]: Key transcription factor that regulates expression of genes involved in cholesterol biosynthesis (PubMed:7958866). Binds to the sterol regulatory element 1 (SRE-1) (5'-ATCACCCCAC-3') (By similarity). Has dual sequence specificity binding to both an E-box motif (5'-ATCACGTGA- 3') and to SRE-1 (5'-ATCACCCCAC-3'). Regulates transcription of genes related to cholesterol synthesis pathway (By similarity).
subunit: [Processed sterol regulatory element-binding protein 2]: Homodimer; efficient DNA binding of the soluble transcription factor fragment requires dimerization with another bHLH protein. Interacts with LMNA.
subunit: [Sterol regulatory element-binding protein 2]: Forms a tight complex with SCAP, the SCAP-SREBP complex, in the endoplasmic reticulum membrane and the Golgi apparatus. Interacts with PAQR3; the interaction anchors the SCAP-SREBP complex to the Golgi apparatus in low cholesterol conditions. Interacts (via C-terminal domain) with RNF139. - Computational prediction of membrane-tethered transcription factors
Zupicich, Genome biology 2001 - “...musculus , P56720 Rattus norvegicus , Q9XX00 Caenorhabditis elegans ), SREBP-2 (Q9UH04 H. sapiens , Q60429 C. griseus ), and AFLR Reg (P43651 Aspergillus parasiticus ). Open reading frames (ORFs) for O65420, O43989, Q17928 were extended using additional nucleotide sequence available in the NCBI database (indicated...”
XP_021502167 sterol regulatory element-binding protein 2 isoform X1 from Meriones unguiculatus
70% identity, 6% coverage
SRBP2_MOUSE / Q3U1N2 Sterol regulatory element-binding protein 2; SREBP-2; Sterol regulatory element-binding transcription factor 2 from Mus musculus (Mouse) (see 10 papers)
NP_150087 sterol regulatory element-binding protein 2 isoform 1 from Mus musculus
70% identity, 6% coverage
- function: [Sterol regulatory element-binding protein 2]: Precursor of the transcription factor form (Processed sterol regulatory element- binding protein 2), which is embedded in the endoplasmic reticulum membrane (By similarity). Low sterol concentrations promote processing of this form, releasing the transcription factor form that translocates into the nucleus and activates transcription of genes involved in cholesterol biosynthesis (PubMed:16100574, PubMed:9616204).
function: [Processed sterol regulatory element-binding protein 2]: Key transcription factor that regulates expression of genes involved in cholesterol biosynthesis (PubMed:9616204). Binds to the sterol regulatory element 1 (SRE-1) (5'-ATCACCCCAC-3'). Has dual sequence specificity binding to both an E-box motif (5'-ATCACGTGA-3') and to SRE-1 (5'-ATCACCCCAC-3') (By similarity). Regulates transcription of genes related to cholesterol synthesis pathway (PubMed:9616204).
subunit: [Sterol regulatory element-binding protein 2]: Forms a tight complex with SCAP, the SCAP-SREBP complex, in the endoplasmic reticulum membrane and the Golgi apparatus (By similarity). Interacts with PAQR3; the interaction anchors the SCAP-SREBP complex to the Golgi apparatus in low cholesterol conditions (PubMed:26311497). Interacts (via C- terminal domain) with RNF139.
subunit: [Processed sterol regulatory element-binding protein 2]: Homodimer; efficient DNA binding of the soluble transcription factor fragment requires dimerization with another bHLH protein (PubMed:11283257). Interacts with LMNA (PubMed:11929849).
disruption phenotype: Death around embryonic day 7-8. - An Interferon Regulated MicroRNA Provides Broad Cell-Intrinsic Antiviral Immunity through Multihit Host-Directed Targeting of the Sterol Pathway.
Robertson, PLoS biology 2016 - “...protein levels for both the uncleaved (P) and cleaved (N) form of the SREBP2 (UniProt: Q3U1N2) protein were also decreased in cells transfected with the miR-342-5p mimic ( Fig 9E ). The latter result contrasts with the action of 25-HC that reduced the cleaved protein (N)...”
- The role of KLF2 in regulating hepatic lipogenesis and blood cholesterol homeostasis via the SCAP/SREBP pathway.
Huang, Journal of lipid research 2024 - GeneRIF: The role of KLF2 in regulating hepatic lipogenesis and blood cholesterol homeostasis via the SCAP/SREBP pathway.
- Rhythm gene PER1 mediates ferroptosis and lipid metabolism through SREBF2/ALOX15 axis in polycystic ovary syndrome.
Chen, Biochimica et biophysica acta. Molecular basis of disease 2024 (PubMed)- GeneRIF: Rhythm gene PER1 mediates ferroptosis and lipid metabolism through SREBF2/ALOX15 axis in polycystic ovary syndrome.
- Mitochondrial translation failure represses cholesterol gene expression via Pyk2-Gsk3β-Srebp2 axis.
Toshima, Life science alliance 2024 - GeneRIF: Mitochondrial translation failure represses cholesterol gene expression via Pyk2-Gsk3beta-Srebp2 axis.
- A lactate-SREBP2 signaling axis drives tolerogenic dendritic cell maturation and promotes cancer progression.
Plebanek, Science immunology 2024 - GeneRIF: A lactate-SREBP2 signaling axis drives tolerogenic dendritic cell maturation and promotes cancer progression.
- SREBP2 restricts osteoclast differentiation and activity by regulating IRF7 and limits inflammatory bone erosion.
Kim, Bone research 2024 - GeneRIF: SREBP2 restricts osteoclast differentiation and activity by regulating IRF7 and limits inflammatory bone erosion.
- Parkin regulates neuronal lipid homeostasis through SREBP2-lipoprotein lipase pathway-implications for Parkinson's disease.
Tang, Human molecular genetics 2023 - GeneRIF: Parkin regulates neuronal lipid homeostasis through SREBP2-lipoprotein lipase pathway-implications for Parkinson's disease.
- Long Non-Coding RNA TUG1 Attenuates Insulin Resistance in Mice with Gestational Diabetes Mellitus via Regulation of the MicroRNA-328-3p/SREBP-2/ERK Axis.
Tang, Diabetes & metabolism journal 2023 - GeneRIF: Long Non-Coding RNA TUG1 Attenuates Insulin Resistance in Mice with Gestational Diabetes Mellitus via Regulation of the MicroRNA-328-3p/SREBP-2/ERK Axis.
- Inhibiting sorting nexin 10 promotes mucosal healing through SREBP2-mediated stemness restoration of intestinal stem cells.
Bao, Science advances 2023 - GeneRIF: Inhibiting sorting nexin 10 promotes mucosal healing through SREBP2-mediated stemness restoration of intestinal stem cells.
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NP_001028866 sterol regulatory element-binding protein 2 from Rattus norvegicus
70% identity, 6% coverage
- High-salt diet induces dyslipidemia through the SREBP2/PCSK9 pathway in dahl salt-sensitive rats.
Ou-Yang, Biochimie 2024 (PubMed)- GeneRIF: High-salt diet induces dyslipidemia through the SREBP2/PCSK9 pathway in dahl salt-sensitive rats.
- Mitochondrial aquaporin-8 is involved in SREBP-controlled hepatocyte cholesterol biosynthesis.
Danielli, Free radical biology & medicine 2019 (PubMed)- GeneRIF: Mitochondrial AQP8 is involved in SREBP2-controlled hepatocyte cholesterol biosynthesis.
- Aβ inhibits SREBP-2 activation through Akt inhibition.
Mohamed, Journal of lipid research 2018 - GeneRIF: identification of SREBP-2 as an indirect target of Akt in neurons, which may play a role in the cross-talk between Alzheimer's disease and diabetes
- Epigallocatechin gallate suppresses hepatic cholesterol synthesis by targeting SREBP-2 through SIRT1/FOXO1 signaling pathway.
Li, Molecular and cellular biochemistry 2018 (PubMed)- GeneRIF: EGCG can alleviate liver injury and oxidative stress in hyperlipidemic rats. EGCG can activate SIRT1, activate FOXO1 protein, regulate SREBP-2 protein, and inhibit hepatic cholesterol synthesis.
- Sterol regulatory element-binding proteins are transcriptional regulators of the thyroglobulin gene in thyroid cells.
Wen, Biochimica et biophysica acta 2016 (PubMed)- GeneRIF: SREBP1c and SREBP2 are transcriptional regulators of the thyroglobulin gene in thyroid cells.
- Sterol regulatory element-binding proteins are regulators of the rat thyroid peroxidase gene in thyroid cells.
Rauer, PloS one 2014 - GeneRIF: SREBP-1c and SREBP-2 are regulators of the rat thyroid peroxidase gene in thyroid cells
- Enhanced circulating PCSK9 concentration by berberine through SREBP-2 pathway in high fat diet-fed rats.
Jia, Journal of translational medicine 2014 - GeneRIF: data provided the first line of the evidence that BBR, similar to the Sim, could increase the expression of PCSK9 levels in HFD rats through SREBP-2 activation
- Regulation of rat hepatic α-amino-β-carboxymuconate-ε-semialdehyde decarboxylase, a key enzyme in the tryptophan- NAD pathway, by dietary cholesterol and sterol regulatory element-binding protein-2.
Matsuda, European journal of nutrition 2014 (PubMed)- GeneRIF: results provide the first evidence that alpha-amino-beta-carboxymuconate-epsilon-semialdehyde decarboxylase (ACMSD) is associated with cholesterol metabolism, and ACMSD gene expression may be upregulated by sterol regulatory element-binding protein-2
- More
SRBP2_HUMAN / Q12772 Sterol regulatory element-binding protein 2; SREBP-2; Class D basic helix-loop-helix protein 2; bHLHd2; Sterol regulatory element-binding transcription factor 2 from Homo sapiens (Human) (see 12 papers)
NP_004590 sterol regulatory element-binding protein 2 from Homo sapiens
70% identity, 6% coverage
- function: [Sterol regulatory element-binding protein 2]: Precursor of the transcription factor form (Processed sterol regulatory element- binding protein 2), which is embedded in the endoplasmic reticulum membrane (PubMed:32322062). Low sterol concentrations promote processing of this form, releasing the transcription factor form that translocates into the nucleus and activates transcription of genes involved in cholesterol biosynthesis (PubMed:32322062).
function: [Processed sterol regulatory element-binding protein 2]: Key transcription factor that regulates expression of genes involved in cholesterol biosynthesis (PubMed:12177166, PubMed:32322062). Binds to the sterol regulatory element 1 (SRE-1) (5'-ATCACCCCAC-3'). Has dual sequence specificity binding to both an E-box motif (5'-ATCACGTGA-3') and to SRE-1 (5'-ATCACCCCAC-3') (PubMed:12177166, PubMed:7903453). Regulates transcription of genes related to cholesterol synthesis pathway (PubMed:12177166, PubMed:32322062).
subunit: [Sterol regulatory element-binding protein 2]: Forms a tight complex with SCAP, the SCAP-SREBP complex, in the endoplasmic reticulum membrane and the Golgi apparatus (PubMed:19706601, PubMed:26311497, PubMed:32322062). Interacts with PAQR3; the interaction anchors the SCAP-SREBP complex to the Golgi apparatus in low cholesterol conditions (PubMed:26311497). Interacts (via C-terminal domain) with RNF139 (PubMed:19706601).
subunit: [Processed sterol regulatory element-binding protein 2]: Homodimer; efficient DNA binding of the soluble transcription factor fragment requires dimerization with another bHLH protein (By similarity). Interacts with LMNA (By similarity). - A single-nucleus transcriptomic atlas of primate liver aging uncovers the pro-senescence role of SREBP2 in hepatocytes.
Yang, Protein & cell 2024 - GeneRIF: A single-nucleus transcriptomic atlas of primate liver aging uncovers the pro-senescence role of SREBP2 in hepatocytes.
- ALOX15B controls macrophage cholesterol homeostasis via lipid peroxidation, ERK1/2 and SREBP2.
Benatzy, Redox biology 2024 - GeneRIF: ALOX15B controls macrophage cholesterol homeostasis via lipid peroxidation, ERK1/2 and SREBP2.
- A lactate-SREBP2 signaling axis drives tolerogenic dendritic cell maturation and promotes cancer progression.
Plebanek, Science immunology 2024 - GeneRIF: A lactate-SREBP2 signaling axis drives tolerogenic dendritic cell maturation and promotes cancer progression.
- Dominant missense variants in SREBF2 are associated with complex dermatological, neurological, and skeletal abnormalities.
Moulton, Genetics in medicine : official journal of the American College of Medical Genetics 2024 (PubMed)- GeneRIF: Dominant missense variants in SREBF2 are associated with complex dermatological, neurological, and skeletal abnormalities.
- Hyperactivation of SREBP induces pannexin-1-dependent lytic cell death.
Xiong, Journal of lipid research 2024 - GeneRIF: Hyperactivation of SREBP induces pannexin-1-dependent lytic cell death.
- Human cytomegalovirus infection impairs neural differentiation via repressing sterol regulatory element binding protein 2-mediated cholesterol biosynthesis.
Li, Cellular and molecular life sciences : CMLS 2024 - GeneRIF: Human cytomegalovirus infection impairs neural differentiation via repressing sterol regulatory element binding protein 2-mediated cholesterol biosynthesis.
- SREBF2-STARD4 axis confers sorafenib resistance in hepatocellular carcinoma by regulating mitochondrial cholesterol homeostasis.
Yue, Cancer science 2023 - GeneRIF: SREBF2-STARD4 axis confers sorafenib resistance in hepatocellular carcinoma by regulating mitochondrial cholesterol homeostasis.
- Parkin regulates neuronal lipid homeostasis through SREBP2-lipoprotein lipase pathway-implications for Parkinson's disease.
Tang, Human molecular genetics 2023 - GeneRIF: Parkin regulates neuronal lipid homeostasis through SREBP2-lipoprotein lipase pathway-implications for Parkinson's disease.
- More
- Cortical lipid metabolic pathway alteration of early Alzheimer's disease and candidate drugs screen.
Wang, European journal of medical research 2024 - “...ligand superfamily member 6 0.998 9 Q92851 PCSK9 Proprotein convertase subtilisin/kexin type 9 0.999 10 Q12772 SREBF2 Sterol regulatory element-binding protein 2 0.994 Fig.6 PPI-based classification of 60 differential lipid metabolic proteins Correlation analysisofnetwork andcore targets screen The mitochondrial fatty acid oxidation (Fig. 7 a) and...”
- Systems pharmacology dissection of Epimedium targeting tumor microenvironment to enhance cytotoxic T lymphocyte responses in lung cancer
Huang, Aging 2021 - “...resistance-associated protein 4 ABCC4 3 homo sapiens P51449 Nuclear receptor ROR-gamma RORC 3 homo sapiens Q12772 Sterol regulatory element-binding protein 2 SREBF2 3 homo sapiens P02774 Vitamin D-binding protein GC 3 homo sapiens P48736 Phosphatidylinositol-4,5-bisphosphate 3-kinase catalytic subunit, gamma isoform PIK3CG 3 homo sapiens P04798 Cytochrome...”
- Use of Network Pharmacology to Explore the Mechanism of Gegen (Puerariae lobatae Radix) in the Treatment of Type 2 Diabetes Mellitus Associated with Hyperlipidemia
Yuan, Evidence-based complementary and alternative medicine : eCAM 2021 - “...hormone-binding globulin 6647 SOD1 P00441 Superoxide dismutase [Cu-Zn] 6652 SORD Q00796 Sorbitol dehydrogenase 6721 SREBF2 Q12772 Sterol regulatory element-binding protein 2 7077 TIMP2 P16035 Metalloproteinase inhibitor 2 7099 TLR4 O00206 Toll-like receptor 4 7124 TNF P01375 Tumor necrosis factor 7412 VCAM1 P19320 Vascular cell adhesion protein...”
- Protopanaxadiol improves endometriosis associated infertility and miscarriage in sex hormones receptors-dependent and independent manners.
Lai, International journal of biological sciences 2021 - “...2 Primary active transporter 7/3 15 P51449 RORC Nuclear receptor ROR-gamma Nuclear receptor 23/9 16 Q12772 SREBF2 Sterol regulatory element-binding protein 2 Unclassified protein 0/1 17 P05093 CYP17A1 Cytochrome P450 17A1 Cytochrome P450 0/28 18 Q9Y233 PDE10A Phosphodiesterase 10A Phosphodiesterase 326/0 19 P11473 VDR Vitamin D...”
- Metallopeptidase Stp1 activates the transcription factor Sre1 in the carotenogenic yeast Xanthophyllomyces dendrorhous
Gómez, Journal of lipid research 2020 (secret) - Dataset of potential Rhizoma Polygonati compound-druggable targets and partial pharmacokinetics for treatment of COVID-19.
Mu, Data in brief 2020 - “...CYP17A1 P04035 HMG-CoA reductase HMGCR Q16850 Cytochrome P450 51 CYP51A1 P04278 Testis-specific androgen-binding protein SHBG Q12772 Sterol regulatory element-binding protein 2 SREBF2 P35398 Nuclear receptor ROR-alpha RORA P11511 Cytochrome P450 19A1 CYP19A1 P23975 Cytochrome P450 2C19 CYP2C19 P08185 Norepinephrine transporter SLC6A2 P11413 Corticosteroid binding globulin SERPINA6...”
- Synergistic Effect of Network-Based Multicomponent Drugs: An Investigation on the Treatment of Non-Small-Cell Lung Cancer with Compound Liuju Formula.
Su, Evidence-based complementary and alternative medicine : eCAM 2019 - “...O75751 Solute carrier family 22 member 3 SLC22A3 5 P04278 Sex hormone-binding globulin SHBG 5 Q12772 Sterol regulatory element-binding protein 2 SREBF2 4 P02774 Vitamin D-binding protein GC 2 O95622 Adenylate cyclase type 5 ADCY5 13 P04798 Cytochrome P450 1A1 CYP1A1 12 P05091 Aldehyde dehydrogenase, mitochondrial...”
- Expression, Localization of SUMO-1, and Analyses of Potential SUMOylated Proteins in Bubalus bubalis Spermatozoa
Brohi, Frontiers in physiology 2017 - “...CT,N S,Z 6 SMAD4 2 SC K159 NDSM Mus musculus [(Q61624)]-Homo sapiens [SMAD4(Q13485), SOX6(P35712), SREBF2 (Q12772), ZNF148 (Q9UQR1)]- Drosophila melanogaster [(P09081-2), (Q7KPL1)]- Saccharomyces cerevisiae [(RPO21(P04050)] CT,N K,T 7 SMAD family member 4 2 SC K159 NDSM Mus musculus [(Q61624)]-Homo sapiens [SMAD4(Q13485), SOX6(P35712), SREBF2 (Q12772), ZNF148 (Q9UQR1)]-...”
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XP_015144523 sterol regulatory element-binding protein 2 from Gallus gallus
69% identity, 6% coverage
XP_974195 sterol regulatory element-binding protein 1 from Tribolium castaneum
71% identity, 7% coverage
NP_001262064 sterol regulatory element binding protein, isoform D from Drosophila melanogaster
75% identity, 5% coverage
- Mitochondrial fusion regulates lipid homeostasis and stem cell maintenance in the Drosophila testis.
Sênos, Nature cell biology 2019 (PubMed)- GeneRIF: constitutive activation of the TOR-pathway target and lipogenesis factor Sterol regulatory element binding protein (SREBP) also resulted in GSC loss, whereas inhibition of SREBP rescued GSC loss triggered by depletion of dMfn.
- Cell-Autonomous Control of Neuronal Dendrite Expansion via the Fatty Acid Synthesis Regulator SREBP.
Ziegler, Cell reports 2017 (PubMed)- GeneRIF: The dendrite simplification in srebp mutant nociceptive neurons is accompanied by hypersensitivity of srebp mutant larvae to noxious stimuli.
- CDK8-Cyclin C Mediates Nutritional Regulation of Developmental Transitions through the Ecdysone Receptor in Drosophila.
Xie, PLoS biology 2015 - GeneRIF: During the larval-pupal transition, the levels of CDK8 inversely correlate with the activity of sterol regulatory element binding protein.
- Signaling networks converge on TORC1-SREBP activity to promote endoplasmic reticulum homeostasis.
Sanchez-Alvarez, PloS one 2014 - GeneRIF: TORC1-SREBP serves to integrate signals promoting growth and G1-S progression in order to maintain enodplasmic reticulum function during cell proliferation.
- Activation of sterol regulatory element binding proteins in the absence of Scap in Drosophila melanogaster.
Matthews, Genetics 2010 - GeneRIF: dScap and dS2P, essential components of the SREBP activation machinery in mammalian cells, are dispensable in Drosophila owing to different compensatory mechanisms.
- Alternative processing of sterol regulatory element binding protein during larval development in Drosophila melanogaster.
Matthews, Genetics 2009 - GeneRIF: Larvae have an alternative cleavage mechanism for producing transcriptionally active dSREBP, and this permits survival of dS2P mutants.
- Activation of sterol regulatory element-binding protein by the caspase Drice in Drosophila larvae.
Amarneh, The Journal of biological chemistry 2009 - GeneRIF: sterol regulatory element-binding protein is activated by the caspase Drice in Drosophila larvae
- Regulation of SREBP processing and membrane lipid production by phospholipids in Drosophila.
Dobrosotskaya, Science (New York, N.Y.) 2002 (PubMed)- GeneRIF: phosphatidylethanolamine, the major phospholipid in Drosophila, controls the release of sterol regulatory element-binding protein (SREBP) from Drosophila cell membranes, exerting feedback control on the synthesis of fatty acids and phospholipids
Smp_000530 zinc finger transcription factor gli2 from Schistosoma mansoni
55% identity, 3% coverage
EGR_00781 Sterol regulatory element-binding protein from Echinococcus granulosus
54% identity, 8% coverage
- Weighted gene co-expression network analysis reveals immune evasion related genes in Echinococcus granulosus sensu stricto
Pereira, Experimental biology and medicine (Maywood, N.J.) 2024 - “...(EGR_01668, EGR_11075, EGR_02030, EGR_07720, EGR_05238). The SaddleBrown module contains 41 genes and 4 hub genes (EGR_00781, EGR_00201, EGR_02438, EGR_05356), no one of these genes were hypothetical proteins. The SkyBlue module shows 43 genes, being 4 of them hub genes (EGR_06618, EGR_10135, EGR_08615, EGR_02611) corresponding all to...”
PADG_03295, XP_010758341 uncharacterized protein from Paracoccidioides brasiliensis Pb18
34% identity, 8% coverage
- Characterization of the Paracoccidioides Hypoxia Response Reveals New Insights into Pathogenesis Mechanisms of This Important Human Pathogenic Fungus
Lima, PLoS neglected tropical diseases 2015 - “...srbA ( PbsrbA ), and the accession numbers in the Paracoccidioides genome database are PAAG_03792, PADG_03295 and PABG_11212 for Pb 01, Pb 18 and Pb 03 strains, respectively. The SREBP proteins are basic helix-loop-helix leucine zipper transcription factors with a conserved tyrosine residue, specific to this...”
- “...from GenBank ( http://www.ncbi.nlm.nih.gov/ ) to Paracoccidioides Pb 01 (XP_002794199); Pb 03 (KGY15961); Pb 18 (XP_010758341); Aspergillus fumigatus (XP_749262); Schizosaccharomyces pombe (NP_595694); Cryptococcus neoformans (XP_567526) and Homo sapiens (P36956). The SREBPs bHLH ( basic helix-loop- helix leucine zipper DNA-binding domain ) protein domains and the length...”
- “..._ DscA (EEH21163) _ DscC (EEH20878) DscD (KGY15713) In this study. Paracoccidioides Pb 18 SrbA (XP_010758341) _ InsA (XP_010759317) _ DscA (XP_010757140) _ DscC (XP_010757528) DscD (XP_010759941) In this study. Aspergillus fumigatus SrbA (XP_749262) _ InsA (XP_752057) _ DscA (XP_752576) DscB (XP_751662) DscC (XP_751757) DscD (XP_754780)...”
SRBPH_CAEEL / Q9XX00 Sterol regulatory element binding protein sbp-1; SREBP sbp-1 from Caenorhabditis elegans (see 10 papers)
NP_499472 Processed sterol regulatory element binding protein sbp-1 from Caenorhabditis elegans
54% identity, 6% coverage
- function: Transcription factor involved in maintaining normal fat levels (PubMed:19187779). Regulates the expression of genes involved in lipid metabolism in response to nutrient availability, such as the fatty-acid desaturases fat-5, fat-6 and fat-7 (PubMed:12530969, PubMed:19936816). In response to a high-glucose diet, promotes fatty acid synthesis, elongation and desaturation, acting in concert with transcription factor mxl-3 (PubMed:29113111). Plays a role in synthesis of monomethyl branched-chain fatty acids (mmBCFAs) as well as other very-long-chain fatty acids (PubMed:15340492). Downstream of the cis- Golgi membrane protein eas-1/GOLT1B and the E3 ubiquitin ligase rnf- 145/RNF145, plays a role in the regulation of glial size, perhaps by modulating synthesis of long-chain polyunsaturated fatty-acids (LC- PUFA) (PubMed:33370778). Modulates expression of genes in the one- carbon cycle, which produces the methyl donor S-adenosylmethionine (SAM) (PubMed:22035958). Probably involved in a feedback loop in which decreased levels of SAM lead to increased transcriptional activity of sbp-1, thereby causing lipid accumulation (PubMed:22035958). Involved in the negative regulation of zinc homeostasis (PubMed:28710073). Involved in the response to simulated microgravity, in concert with Mediator complex subunit mdt-15, probably acting in the intestine (PubMed:32448509). Plays a role in transgenerational lipid accumulation in response to a high-fat diet, probably acting by upregulating wdr-5.1 expression to increase the level of trimethylated 'Lys-4' histone H3 (H3K4me3), which may then induce the expression of fat-5, fat-6 and fat-7 (PubMed:35140229). May act as an oxygen sensor for lipid metabolism (PubMed:19187779).
function: [Sterol regulatory element binding protein sbp-1]: Precursor of the transcription factor form, which is embedded in the endoplasmic reticulum membrane (By similarity). Processing of this form allows release of the transcription factor form that translocates into the nucleus and activates transcription of genes involved in sterol biosynthesis and lipid homeostasis (By similarity).
function: [Processed sterol regulatory element binding protein sbp-1]: Key transcription factor that regulates expression of genes involved in sterol biosynthesis and lipid homeostasis.
disruption phenotype: RNAi-mediated knockdown causes early larval arrest and a pale, skinny appearance; paleness due to absence of dark, lipid-laden fat granules from the intestine (PubMed:12530969, PubMed:19936816). Decrease in body size, delayed growth, fewer eggs laid and 5-6 days after being laid, many eggs hatch inside the body (PubMed:19936816). Exposure to oleic or linoleic acid returns body size almost to normal and also increases number of eggs laid (PubMed:19936816). In normoxic conditions, reduces total fat levels, but has no effect in anoxia (PubMed:19187779). Reduces the increase in body width/length ratio caused by anoxia (PubMed:19187779). Alters fatty-acid composition, including of monomethyl branched-chain fatty acids (mmBCFAs) (PubMed:15340492). Exacerbates induction of reactive oxygen species (ROS) production and decrease in locomotion behavior caused by simulated microgravity (PubMed:32448509). Knockdown in the first generation offspring (F1) of adults fed a high-fat diet prevents lipid accumulation (PubMed:35140229). Tissue-specific knockdown in any of several different tissues abolishes elevated levels of H3K4me3 modification (PubMed:35140229). - Computational prediction of membrane-tethered transcription factors
Zupicich, Genome biology 2001 - “...sapiens ), SREBP-1 (Q60416 Cricetulus griseus , Q9WTN3 Mus musculus , P56720 Rattus norvegicus , Q9XX00 Caenorhabditis elegans ), SREBP-2 (Q9UH04 H. sapiens , Q60429 C. griseus ), and AFLR Reg (P43651 Aspergillus parasiticus ). Open reading frames (ORFs) for O65420, O43989, Q17928 were extended using...”
- Lipid metabolic sensors of MDT-15 and SBP-1 regulated the response to simulated microgravity in the intestine of Caenorhabditis elegans.
Liu, Biochemical and biophysical research communications 2020 (PubMed)- GeneRIF: Lipid metabolic sensors of MDT-15 and SBP-1 regulated the response to simulated microgravity in the intestine of Caenorhabditis elegans.
- Pu-erh tea down-regulates sterol regulatory element-binding protein and stearyol-CoA desaturase to reduce fat storage in Caenorhaditis elegans.
Ding, PloS one 2015 - GeneRIF: the ability of Pu-erh tea in promoting inhibition of food uptake and the biosynthesis of fat via SBP-1 and SCD, thereby reducing fat storage.
- A conserved SREBP-1/phosphatidylcholine feedback circuit regulates lipogenesis in metazoans.
Walker, Cell 2011 - GeneRIF: SBP-1/SREBP-1 is part of a conserved feedback loop responding to phosphatidylcholine levels to regulate expression of one-carbon cycle biogenesis genes and ensure adequate S-adenosylmethionine levels for phosphatidylcholine production.
- Essential role of SBP-1 activation in oxygen deprivation induced lipid accumulation and increase in body width/length ratio in Caenorhabditis elegans.
Taghibiglou, FEBS letters 2009 (PubMed)- GeneRIF: Essential role of sbp-1 activation in oxygen deprivation induced lipid accumulation and increase in body width/length ratio in Caenorhabditis elegans.
- An ARC/Mediator subunit required for SREBP control of cholesterol and lipid homeostasis.
Yang, Nature 2006 (PubMed)- GeneRIF: both SBP-1 and MDT-15 control transcription of genes governing desaturation of stearic acid to oleic acid
- Monomethyl branched-chain fatty acids play an essential role in Caenorhabditis elegans development.
Kniazeva, PLoS biology 2004 - GeneRIF: elo-5 and elo-6 may be transcriptional targets of LPD-1
Q5AVL9 BHLH transcription factor (Eurofung) from Emericella nidulans (strain FGSC A4 / ATCC 38163 / CBS 112.46 / NRRL 194 / M139)
ANIA_07661 hypothetical protein from Aspergillus nidulans FGSC A4
39% identity, 8% coverage
- Comprehensive Analysis of Aspergillus nidulans PKA Phosphorylome Identifies a Novel Mode of CreA Regulation.
Ribeiro, mBio 2019 - “...PacC/RIM101 AESPEASTEAEPFEER Q5BCK1 AN1729.2 ANIA_01729 PrnA protein ALLDPTEIIQSPSSAKK C8VQ48 ANIA_00162 Putative APSES transcription factor KSGSDDDGSAGSGMVQEVK Q5AVL9 AN7661.2 ANIA_07661 Putative bHLH transcription factor RLDEPEDSVAETTTTTPPSQQPQEQTR Q5BH27 AN0153.2 ANIA_00153 Putative Myb-like transcription factor SMVADDDNRPTTQYNTSPTGTGSSR C8VRL9 ANIA_01402 Putative Zn(II)2Cys6 transcription factor SLSAGGYNATNSPTR Q5B4H2 AN4558.2 ANIA_04558 Putative Zn(II)2Cys6 transcription factor QQLASMSDAEIQK...”
- Comprehensive Analysis of Aspergillus nidulans PKA Phosphorylome Identifies a Novel Mode of CreA Regulation
Ribeiro, mBio 2019 - “...Q5BCK1 AN1729.2 ANIA_01729 PrnA protein ALLDPTEIIQSPSSAKK C8VQ48 ANIA_00162 Putative APSES transcription factor KSGSDDDGSAGSGMVQEVK Q5AVL9 AN7661.2 ANIA_07661 Putative bHLH transcription factor RLDEPEDSVAETTTTTPPSQQPQEQTR Q5BH27 AN0153.2 ANIA_00153 Putative Myb-like transcription factor SMVADDDNRPTTQYNTSPTGTGSSR C8VRL9 ANIA_01402 Putative Zn(II)2Cys6 transcription factor SLSAGGYNATNSPTR Q5B4H2 AN4558.2 ANIA_04558 Putative Zn(II)2Cys6 transcription factor QQLASMSDAEIQK Q5B9K9 AN2771.2...”
PAAG_03792, XP_002794199 hypothetical protein from Paracoccidioides lutzii Pb01
33% identity, 8% coverage
- Characterization of the Paracoccidioides Hypoxia Response Reveals New Insights into Pathogenesis Mechanisms of This Important Human Pathogenic Fungus
Lima, PLoS neglected tropical diseases 2015 - “...gene srbA ( PbsrbA ), and the accession numbers in the Paracoccidioides genome database are PAAG_03792, PADG_03295 and PABG_11212 for Pb 01, Pb 18 and Pb 03 strains, respectively. The SREBP proteins are basic helix-loop-helix leucine zipper transcription factors with a conserved tyrosine residue, specific to...”
- “...amino acid predicted sequences were obtained from GenBank ( http://www.ncbi.nlm.nih.gov/ ) to Paracoccidioides Pb 01 (XP_002794199); Pb 03 (KGY15961); Pb 18 (EEH47197); Aspergillus fumigatus (XP_749262); Schizosaccharomyces pombe (NP_595694); Cryptococcus neoformans (XP_567526) and Homo sapiens (P36956). The SMART tool ( http://smart.embl-heidelberg.de ) [ 55 , 56 ]...”
- “...The amino acid sequences were obtained from GenBank ( http://www.ncbi.nlm.nih.gov/ ) to Paracoccidioides Pb 01 (XP_002794199); Pb 03 (KGY15961); Pb 18 (XP_010758341); Aspergillus fumigatus (XP_749262); Schizosaccharomyces pombe (NP_595694); Cryptococcus neoformans (XP_567526) and Homo sapiens (P36956). The SREBPs bHLH ( basic helix-loop- helix leucine zipper DNA-binding domain...”
SRE2_SCHPO / O43019 Putative transcription factor sre2; Sterol regulatory element-binding protein 2 from Schizosaccharomyces pombe (strain 972 / ATCC 24843) (Fission yeast) (see 2 papers)
NP_595229, SPBC354.05c membrane-tethered transcription factor (predicted) (PMID 11790253) from Schizosaccharomyces pombe
45% identity, 8% coverage
- function: Putative transcription factor
- Characterization of the Paracoccidioides Hypoxia Response Reveals New Insights into Pathogenesis Mechanisms of This Important Human Pathogenic Fungus
Lima, PLoS neglected tropical diseases 2015 - “...Dsc3 (NP_593622) Dsc4 (NP_594964) [ 27 , 33 , 86 , 87 ]. Ser 2 (NP_595229) Cryptococcus neoformans Sre 1 (XP_567526) Scp1 (XP_569410) _ Stp1 (XP_571333) _ _ _ _ [ 27 , 35 , 36 , 38 , 99 ]. a NCBI ( http://www.ncbi.nlm.nih.gov/ )...”
- Sterol regulatory element binding proteins in fungi: hypoxic transcription factors linked to pathogenesis
Bien, Eukaryotic cell 2010 - “...A. fumigatus C. albicans Sre1 (NP_595694); Sre2 (NP_595229) Sre1 (XP_567526) SrbA (XP_749262) Cph2 (XP_712449) S. cerevisiae M. grisea a (XP_001410973)...”
- Lessons from the genome sequence of Neurospora crassa: tracing the path from genomic blueprint to multicellular organism
Borkovich, Microbiology and molecular biology reviews : MMBR 2004 - “...2.00e-08 None S. pombe NP_596545; 7.00e-44 S. pombe NP_595229; 0.075 bHLH sexual differentiation protein Esc1p BHLH; CAD70402 HLH/MCM; Mcm7p HLH I domain; USF...”
- Schizosaccharomyces pombe essential genes: a pilot study
Decottignies, Genome research 2003 - “...SPBC649.06 SPBC354.02c/sec61 SPBC354.03 SPBC354.04 SPBC354.05c SPBC354.06 SPBC354.07c SPBC354.08c SPBC354.09c SPBC354.10 SPBC354.11c SPBC354.12 SPBC354.13...”
Pc20g05880 uncharacterized protein from Penicillium rubens
39% identity, 6% coverage
SRBA_ASPFU / Q4WIN1 Transcription regulator srbA precursor; Sterol regulatory element-binding protein A from Aspergillus fumigatus (strain ATCC MYA-4609 / CBS 101355 / FGSC A1100 / Af293) (Neosartorya fumigata) (see 16 papers)
AFUA_2G01260, Afu2g01260, XP_749262 HLH transcription factor, putative from Aspergillus fumigatus Af293
40% identity, 7% coverage
- function: Precursor of the transcription factor srbA, which is embedded in the endoplasmic reticulum membrane (PubMed:23104569, PubMed:27303716, PubMed:34964293). Low oxygen or sterol conditions promote processing of this form, releasing the transcription factor form that translocates into the nucleus and activates transcription of genes required for adaptation to anaerobic growth (PubMed:23104569, PubMed:27303716, PubMed:34964293).
function: [Cleavage-activated transcription regulator srbA]: Transcription factor that regulates sterol biosynthesis and hyphal morphology (PubMed:18989462). Plays a critical role in ergosterol biosynthesis, resistance to the azole class of antifungal drugs, and in maintenance of cell polarity (PubMed:18989462, PubMed:22006005, PubMed:22144905, PubMed:25107308, PubMed:25375670, PubMed:27438727, PubMed:27934927, PubMed:28052140). Directly binds erg11A/cyp51A upstream DNA sequence at tandem repeats, called TR34 and TR46, that produce duplicated binding sites (PubMed:22006005, PubMed:27934927, PubMed:35467427, PubMed:35575535). Also mediates regulation of iron acquisition in response to hypoxia and low iron conditions via activation of extra- and intracellular siderophore production (PubMed:22144905, PubMed:22260221, PubMed:25375670, PubMed:37093084). Positively regulates the expression of the other hypoxia adaptation key transcription factor srbB (PubMed:25375670). Required for the azole- sensing and response to azole stress (PubMed:28050634). Binds the high- affinity sites 5'-A-T-C-G/A-T/G-A/G-C/T-G/C-A-T-3' of target promoters (PubMed:22260221). Required for virulence in murine models of invasive pulmonary aspergillosis (IPA) (PubMed:18989462).
disruption phenotype: Impairs growth in a hypoxic environment and subsequent virulence in two distinct murine models of invasive pulmonary aspergillosis (IPA) (PubMed:18989462, PubMed:22006005, PubMed:23104569, PubMed:27303716). Decreases the expression of erg11A/cyp51A in response to fluconazole and voriconazole (PubMed:22006005). Also impairs growth during iron starvation due to iron shortage (PubMed:22144905, PubMed:25107308). Affects the expression of at least 87 genes including genes involved in sterol biosynthesis and hyphal morphology (PubMed:18989462). Leads to high susceptibility to azoles such as fluconazole and voriconazole (PubMed:18989462, PubMed:27934927, PubMed:28052140). - Aspergillus fumigatus Hypoxia Adaptation Is Critical for the Establishment of Fungal Keratitis
Lightfoot, Investigative ophthalmology & visual science 2024 - “...S2 . The crRNAs were designed to flank the coding region of the srbA gene (Afu2g01260) and conjugated to tracrRNAs (IDT) by combining equimolar amounts with nuclease free duplex buffer (IDT). Then, 3.33L of each reagent is combined and incubated at 95C for 5 minutes before...”
- ResFungi: A Novel Protein Database of Antifungal Drug Resistance Genes Using a Hidden Markov Model Profile
Santana, ACS omega 2024 - “...sterol demethylase Cyp51A itraconazole AFUA_6G05300 CCAAT-binding factor complex subunit HapE AFUA_7G03740 14-alpha sterol demethylase Cyp51B AFUA_2G01260 HLH transcription factor%2C putative AFUA_4G08340 heme a biosynthesis protein%2C putative AFUA_4G06890 14-alpha sterol demethylase Cyp51A micafungin AFUA_6G12400 1,3-beta-glucan synthase catalytic subunit FksP voriconazole AFUA_7G03740 14-alpha sterol demethylase Cyp51B AFUA_4G06890 14-alpha...”
- Aspergillus fumigatus biofilms: Toward understanding how growth as a multicellular network increases antifungal resistance and disease progression
Morelli, PLoS pathogens 2021 - “...with poor nitrogen sources, null mutants have decreased adhesion [ 29 , 71 ] srbA Afu2g01260 Hypoxia responsive bHLH transcription factor essential for growth in low oxygen. Regulates sterol synthesis genes, has a role in polarity, and is required for biofilm structure and maturation [ 31...”
- Determining Aspergillus fumigatus transcription factor expression and function during invasion of the mammalian lung
Liu, PLoS pathogens 2021 - “...0 3234 3934 Afu5g00710 GABA permease 9.63 45.45 39.14 168 1616 7633 6572 Stress response Afu2g01260 srbA Sterol regulatory element binding protein (SREBP); basic helix-loop-helix leucine zipper DNA binding domain 0.85 1.81 1.73 9403 7991 16995 16299 Afu3g04070 hacA bZIP transcription factor, major regulator of the...”
- Nitrogen, Iron and Zinc Acquisition: Key Nutrients to Aspergillus fumigatus Virulence
Perez-Cuesta, Journal of fungi (Basel, Switzerland) 2021 - “...Afu5g03920 hapX Decreased conidiation and siderophore production Decreased [ 66 ] Sterol regulatory element-binding protein Afu2g01260 srbA Inviable in anaerobic conditions Decreased [ 62 ] Regulator of genes involved in gluconeogenesis Afu2g12330 acuM Decreased iron and carbon utilization Decreased [ 67 ] Regulator of genes involved...”
- An LaeA- and BrlA-Dependent Cellular Network Governs Tissue-Specific Secondary Metabolism in the Human Pathogen Aspergillus fumigatus
Lind, mSphere 2018 - “...and response to stress ( Fig.1 ). Among these genes are the hypoxia regulators srbA (Afu2g01260) and srbB (Afu4g03460) ( TableS1 ). Both transcription factors contribute to virulence and are critical for regulation of iron uptake, heme biosynthesis, and ergosterol synthesis in A.fumigatus ( 33 )....”
- Diversification of DNA binding specificities enabled SREBP transcription regulators to expand the repertoire of cellular functions that they govern in fungi
Del, PLoS genetics 2018 - “...of the C . parapsilosis Hms1 ( CPAR2_303750 ) and the A . fumigatus SrbA (Afu2g01260) proteins and carried out electrophoretic mobility gel shift assays (EMSAs). As shown in Fig 4A , all three proteins bound to a DNA fragment harboring an instance of the non-palindromic...”
- Genomic Organization and Expression of Iron Metabolism Genes in the Emerging Pathogenic Mold Scedosporium apiospermum
Le, Frontiers in microbiology 2018 - “...69 KEZ46879.1 SreA ZnF_GATA transcription factor AFUA_5G11260 SAPIO_CDS7310 (1e-34/39%) 40 KEZ41223.1 SrbA bHLH transcription factor AFUA_2G01260 HapX bZip transcription factor AFUA_5G03920 SAPIO_CDS9738 (8e-22/30%) 49 NW_015971844.1 * REDUCTIVE IRON ASSIMILATION FreB Ferric reductase AFUA_1G17270 SAPIO_CDS2383 (5e-67/38%) 75 KEZ44995.1 SAPIO_CDS1476 (1e-46/28%) 69 KEZ45701.1 SAPIO_CDS9014 (2e-39/30%) 48 KEZ40025.1 SAPIO_CDS10508...”
- More
ATEG_08156 uncharacterized protein from Aspergillus terreus NIH2624
36% identity, 8% coverage
An03g05170 uncharacterized protein from Aspergillus niger
35% identity, 8% coverage
- Identification and Characterization of a Novel Basic Helix-Loop-Helix Transcription Factor of Phospholipid Synthesis Regulation in Aspergillus niger
Dong, Frontiers in microbiology 2019 - “...EMSA Kit. Yeast Two-Hybrid Assay cDNA of nine bHLH genes ( An0204350 , An03g04180 , An03g05170 , An08g01380 , An08g04000 , An09g06630 , An14g02540 , An15g03490 , and An01g13950 ) and opi1(An15g02370) were amplified. The PCR products were then constructed into the linearized plasmid pGADT7 AD...”
- “...An08g04000 , An15g03490 , An01g13950 , An09g06630 , An03g04180 , An08g01380 , An14g02540 , and An03g05170 ; Pel et al., 2007 ) by itself in A. niger. In S. cerevisiae , ino2 and ino4 are two bHLH family TFs, the proteins of which form the heterodimer...”
- Multi-omics integrative analysis with genome-scale metabolic model simulation reveals global cellular adaptation of Aspergillus niger under industrial enzyme production condition
Lu, Scientific reports 2018 - “...the expression of SREBPs 31 . In A. niger , the corresponding genes are srbA (An03g05170) and srbB (An14g02540), respectively 32 . In this work, the expression of the former was down-regulated first and then was up-regulated (in cluster 14) while the expression of the latter...”
- Metabolic activity in dormant conidia of Aspergillus niger and developmental changes during conidial outgrowth
Novodvorska, Fungal genetics and biology : FG & B 2016 - “...by sorbic acid. Transcription of the sterol regulatory element binding protein SREBP encoded by srbA (An03g05170) that serves as a sterol-dependent oxygen sensor and sterol homeostasis in filamentous fungi ( Willger et al., 2008 ) was up-regulated by sorbic acid. Sterol 24-C-methyltransferase, encoded by erg6 in...”
- “...T5SA An04g04210 6.4 862.7 -24-sterol-C-methyltransferase, erg6 T5SA An03g06410 1.8 10.4 C-4 methyl sterol oxidase, erg25 An03g05170 31.2 109.9 SREBP, srbA...”
- Comprehensive annotation of secondary metabolite biosynthetic genes and gene clusters of Aspergillus nidulans, A. fumigatus, A. niger and A. oryzae
Inglis, BMC microbiology 2013 - “...An03g03620 ECS ECS, IGD An03g05140 cluster An03g05140 An03g05050 - An03g05270 An03g05040 - An03g05230 An03g05140 - An03g05170 ECS ECS An03g05440 cluster An03g05440 An03g05300 - An03g05500 An03g05330 - An03g05540 An03g05430 - An03g05500 ECS ECS An03g05680 cluster An03g05680 An03g05660 - An03g05800 An03g05600 - An03g05760 An03g05660 - An03g05710 ECS ECS...”
FGSG_02814 hypothetical protein from Fusarium graminearum PH-1
39% identity, 21% coverage
- The Transcription Factor FgAtrR Regulates Asexual and Sexual Development, Virulence, and DON Production and Contributes to Intrinsic Resistance to Azole Fungicides in Fusarium graminearum
Zhao, Biology 2022 - “...and FGSG_06215, were all significantly reduced in the FgAtrR mutant. In addition, the expression of FGSG_02814, a homolog of SREBP1, was greatly decreased in the FgAtrR mutant, as was the expression of FGSG_00313, a homolog of Upc2. The function of these two genes needs to be...”
- A Phenome-Wide Association Study of the Effects of Fusarium graminearum Transcription Factors on Fusarium Graminearum Virus 1 Infection
Yu, Frontiers in microbiology 2021 - “...showed similar colony morphology compared to WT-VI. Although RNA-Seq analysis also identified GzbHLH006 (FGSG_02516), GzbHLH007 (FGSG_02814) GzC2H006 (FGSG_00764), TRI15 (FGSG_03881), and GzGATA003 (FGSG_04626) that showed significant changes of gene expression levels upon FgV1, Fusarium graminearum virus 2 (FgV2; a Chrysovirus), FgV3 (a Fusagravirus), and Fusarium graminearum...”
- A Natural Mutation Involving both Pathogenicity and Perithecium Formation in the Fusarium graminearum Species Complex
Suga, G3 (Bethesda, Md.) 2016 - “...pair of lanes across lanes 132 are the results of Fg0407011 and Fa0225022, respectively, for FGSG_02814 (lanes 1 and 2), FGSG_12575 (lanes 3 and 4), FGSG_02813 (lanes 5 and 6), FGSG_02812 (lanes 7 and 8), FGSG_02811 (lanes 9 and 10), FGSG_02810 (lanes 11 and 12), FGSG_02809...”
- Genomic clustering and co-regulation of transcriptional networks in the pathogenic fungus Fusarium graminearum
Lawler, BMC systems biology 2013 - “...FG2.11 FGSG_08634 GATA 1 FG2.01 FGSG_00750 HLH 2 FG1, FG2.11 FGSG_01307 HLH 2 FG1, FG6 FGSG_02814 HLH 4 FG1, FG2.11, FG6, FG6 FGSG_05567 HLH 4 FG1, FG2.11, FG6, FG6 FGSG_09043 Homeobox/zf-C2H2 1 FG2.11 FGSG_06359 HSF_DNA-bind 1 FG6 FGSG_13911 Myb_DNA-binding 1 FG2.01 FGSG_01298 zf-C2H2 1 FG6 FGSG_01341...”
SREBP_SCHPO / Q9UUD1 Sterol regulatory element-binding protein 1 from Schizosaccharomyces pombe (strain 972 / ATCC 24843) (Fission yeast) (see 9 papers)
sre1 / RF|NP_595694.1 sterol regulatory element binding protein, transcription factor Sre1 from Schizosaccharomyces pombe (see 4 papers)
NP_595694 sterol regulatory element binding protein Sre1 from Schizosaccharomyces pombe
NP_595694 transcription factor Sre1 from Schizosaccharomyces pombe
40% identity, 7% coverage
- function: [Sterol regulatory element-binding protein 1]: Precursor of the transcription factor form (Processed sterol regulatory element- binding protein 1), which is embedded in the endoplasmic reticulum membrane (PubMed:15797383). Low oxygen or sterol conditions promote processing of this form, releasing the transcription factor form that translocates into the nucleus and activates transcription of genes required for adaptation to anaerobic growth (PubMed:15797383).
function: [Processed sterol regulatory element-binding protein 1]: Transcriptional activator required for transcription of genes required for adaptation to anaerobic growth like those implicated in the nonrespiratory oxygen-consumptive biosynthetic pathways of sterol, heme, sphingolipid, and ubiquinone biosynthesis. May monitor oxygen levels through sterol synthesis steps which require oxygen.
subunit: Forms a tight complex with scp1, composed of 4 copies of scp1 and 4 copies of sre1, which protects sre1 precursor from degradation by the proteasome.
disruption phenotype: Cells fail to grow in the absence of oxygen or sterols. - CharProtDB Source (per GeneDB): GeneDB_Spombe
- Characterization of the Paracoccidioides Hypoxia Response Reveals New Insights into Pathogenesis Mechanisms of This Important Human Pathogenic Fungus
Lima, PLoS neglected tropical diseases 2015 - “...Paracoccidioides Pb 01 (XP_002794199); Pb 03 (KGY15961); Pb 18 (EEH47197); Aspergillus fumigatus (XP_749262); Schizosaccharomyces pombe (NP_595694); Cryptococcus neoformans (XP_567526) and Homo sapiens (P36956). The SMART tool ( http://smart.embl-heidelberg.de ) [ 55 , 56 ] was used to search for conserved domain bHLH ( basic helix-loop- helix...”
- “...Paracoccidioides Pb 01 (XP_002794199); Pb 03 (KGY15961); Pb 18 (XP_010758341); Aspergillus fumigatus (XP_749262); Schizosaccharomyces pombe (NP_595694); Cryptococcus neoformans (XP_567526) and Homo sapiens (P36956). The SREBPs bHLH ( basic helix-loop- helix leucine zipper DNA-binding domain ) protein domains and the length of each protein (indicated on the...”
- Sterol regulatory element binding proteins in fungi: hypoxic transcription factors linked to pathogenesis
Bien, Eukaryotic cell 2010 - “...pombe C. neoformans A. fumigatus C. albicans Sre1 (NP_595694); Sre2 (NP_595229) Sre1 (XP_567526) SrbA (XP_749262) Cph2 (XP_712449) S. cerevisiae M. grisea a...”
- Lessons from the genome sequence of Neurospora crassa: tracing the path from genomic blueprint to multicellular organism
Borkovich, Microbiology and molecular biology reviews : MMBR 2004 - “...0.002 S. cerevisiae NP_009447; 2.00e-06 S. pombe NP_595694; 1.00e-13 S. pombe NP_595694; 5.00e-23 S. cerevisiae NP_014989; 0.42 HLH; A thaliana H84860...”
- Coordinate Regulation of Yeast Sterol Regulatory Element-binding Protein (SREBP) and Mga2 Transcription Factors.
Burr, The Journal of biological chemistry 2017 - GeneRIF: Sre1 and Mga2 are each regulated by the lipid product of the other transcription factor pathway, providing a source of coordination for these two branches of lipid synthesis
- Restriction of Retrotransposon Mobilization in Schizosaccharomyces pombe by Transcriptional Silencing and Higher-Order Chromatin Organization.
Murton, Genetics 2016 - GeneRIF: we describe the impact of silencing and clustering on the mobility of an endogenous Tf2 element. Deletion of genes such as set1(+) or abp1(+) that both alleviate silencing and clustering, result in a corresponding increase in mobilization. Furthermore, expression of constitutively active Sre1, a transcriptional activator of Tf2 elements, also alleviates clustering and induces mobilization
- Structure of the WD40 domain of SCAP from fission yeast reveals the molecular basis for SREBP recognition.
Gong, Cell research 2015 - GeneRIF: Here we report the in vitro reconstitution of the complex between the C domains of Sre1 and Scp1 as well as the crystal structure of the WD40 domain of Scp1 at 2.1 A resolution.
- Casein kinase 1 regulates sterol regulatory element-binding protein (SREBP) to control sterol homeostasis.
Brookheart, The Journal of biological chemistry 2014 - GeneRIF: We describe our isolation and characterization of the casein kinase 1 family member Hhp2 as a novel regulator of Sre1N.
- Regulation of SREBP during hypoxia requires Ofd1-mediated control of both DNA binding and degradation.
Porter, Molecular biology of the cell 2012 - GeneRIF: Data indicate that when oxygen is present, the prolyl hydroxylase Ofd1 down-regulates sterol regulatory element-binding protein Sre1N activity in two ways: first, by inhibiting its binding to DNA, and second, by accelerating its degradation.
- The hypoxic regulator of sterol synthesis nro1 is a nuclear import adaptor.
Yeh, Structure (London, England : 1993) 2011 - GeneRIF: Studies indicate that the Nro1 NTD binds Ofd1CTDD and stabilizes Sre1N.
- Oxygen-dependent binding of Nro1 to the prolyl hydroxylase Ofd1 regulates SREBP degradation in yeast.
Lee, The EMBO journal 2009 - GeneRIF: Ofd1 dioxygenase domain functions as an oxygen sensor that regulates binding of Nro1 to Ofd1 to control oxygen-dependent Sre1N stability.
- Degradation of sterol regulatory element-binding protein precursor requires the endoplasmic reticulum-associated degradation components Ubc7 and Hrd1 in fission yeast.
Hughes, The Journal of biological chemistry 2009 - GeneRIF: Degradation of Sre1 in the absence of Scp1 requires the ER-associated degradation (ERAD) components Ubc7, an E2 ubiquitin conjugating enzyme, and Hrd1, an E3 ubiquitin ligase.
- More
NCU04731 HLH transcription factor from Neurospora crassa OR74A
38% identity, 6% coverage
- Cold Shock as a Screen for Genes Involved in Cold Acclimatization in Neurospora crassa
Watters, G3 (Bethesda, Md.) 2018 - “...protein app Morph/Hyph NCU04619 11137 hypothetical protein Transc Factors NCU04628 11138 hypothetical protein Transc Factors NCU04731 11139 Sterol regulatory element binding protein sah-2 sah-2 Transc Factors NCU04733 11737 UvrD/REP helicase mus-50 E. coli CS Orth NCU04834 11236 sensor histidine kinase/response regulator phy-1 Morph/Hyph NCU04851 11089 hypothetical...”
- Deletion of homologs of the SREBP pathway results in hyper-production of cellulases in Neurospora crassa and Trichoderma reesei
Reilly, Biotechnology for biofuels 2015 - “...(NCU02676) (Additional file 3 : Figure S2C, D) and a transcription factor similar to Sre1/SreA (NCU04731) (Additional file 3 : Figure S2E). A strain carrying a deletion of NCU04731 was previously characterized in a transcription factor deletion strain set collection and was named for having short...”
- “...single-gene deletion mutant strains for NCU02676 ( dsc - 4 ) and sah - 2 (NCU04731) were assessed for their protein production under cellulolytic conditions. As observed for the dsc - 2 and tul - 1 mutants, strains carrying a deletion of dsc - 4 or...”
- A genome-wide screen for Neurospora crassa transcription factors regulating glycogen metabolism
Gonçalves, Molecular & cellular proteomics : MCP 2011 - “...the strains mutated in the ORFs NCU01629, and NCU04731 accumulated more glycogen under the heat shock condition than under the normal growth condition. Finally,...”
- “...45.91/8.82 66.25/5.79 51.01/8.89 93.67/6.6 11139 11348 11355 NCU04731 NCU02713 NCU03043 bHLH C2H2 zinc finger C2H2 zinc finger 117.54/6.17 31.2/8.99 41.73/ 8.57...”
- Exploring the bZIP transcription factor regulatory network in Neurospora crassa
Tian, Microbiology (Reading, England) 2011 - “...colony TF Family Tip/interior* Growth (mmday 1 ) Annotation NCU00749 BHLH 2.0 6065 Predicted protein NCU04731 BHLH 1.9 6570 sah-2 , short aerial hyphae-2 NCU02724 BHLH 1.6 7075 Helixloophelix DNA-binding domain NCU00499 bZIP 1.6 2530 ada-1 , all development altered-1 NCU01459 bZIP 0.6 asl-2 , ascospore...”
- Transcription factors in light and circadian clock signaling networks revealed by genomewide mapping of direct targets for neurospora white collar complex
Smith, Eukaryotic cell 2010 - “...bek-1TF NCU07705 TF NCU01154 sub-1 TF NCU06534 TF/NCU06536 NCU04731 sah-2 TF NCU07728 sre TF NCU07846 TF NCU00275 TF/NCU00276 mip-1 NCU02094 vad-2 TF/NCU02095...”
- Temporal and spatial regulation of gene expression during asexual development of Neurospora crassa
Greenwald, Genetics 2010 - “...NCU02713 NCU02713 NCU03043 NCU03489 NCU03593 NCU03686 NCU03931 NCU04179 NCU04731 NCU06656 NCU07374 NCU07617 NCU08307 NCU08651 NCU08726 Gene name 0 hr 2 hr 4 hr...”
BCIN_01g05780 hypothetical protein from Botrytis cinerea B05.10
36% identity, 8% coverage
MGG_11534 uncharacterized protein from Pyricularia oryzae 70-15
38% identity, 7% coverage
CPH2_CANAL / Q59RL7 Transcription factor CPH2; Candida pseudohyphal regulator 2 from Candida albicans (strain SC5314 / ATCC MYA-2876) (Yeast) (see 11 papers)
CPH2 Myc-bHLH family transcriptional activator of hyphal growth from Candida albicans (see 4 papers)
XP_712305 Cph2p from Candida albicans SC5314
35% identity, 8% coverage
- function: Transcription factor that positively controls filamentous growth, virulence, and invasiveness. Binds directly to the two SRE-1- like elements upstream of TEC1 and thus positively regulates expression of this important hyphal growth regulator. Functions independently of known signaling cascades involving EFG1. Also regulates gene expression during intestinal colonization but is not involved in host cell adhesion.
disruption phenotype: Impairs expression of hypha-specific transcripts and leads to a medium-specific impairment in hyphal development. - CharProtDB CGD description: Myc-bHLH family transcriptional activator of hyphal growth; directly regulates Tec1p, which regulates hypha-specific genes; probably homodimeric, phosphorylated; required for wild-type levels of Candida colonization of the mouse GI tract
- Function and Regulation of Cph2 in Candida albicans.
Lane, Eukaryotic cell 2015 - GeneRIF: Cph2 binds to the promoters of HMS1 and other components of the regulatory circuit for GI tract colonization.
- Pho85, Pcl1, and Hms1 signaling governs Candida albicans morphogenesis induced by high temperature or Hsp90 compromise.
Shapiro, Current biology : CB 2012 (PubMed)- GeneRIF: Hms1 functions downstream of the cyclin Pcl1 and the cyclin-dependent kinase Pho85, both of which are required for temperature-dependent filamentation.
VDAG_01557 sterol regulatory element binding protein Sre1 from Verticillium dahliae VdLs.17
38% identity, 7% coverage
7f2fB / P33122 The complex of DNA with thE C-terminal domain of tye7 from saccharomyces cerevisiae.
42% identity, 73% coverage
CPAR2_603440 uncharacterized protein from Candida parapsilosis
35% identity, 9% coverage
- The Pathogenic Yeast Candida parapsilosis Forms Pseudohyphae through Different Signaling Pathways Depending on the Available Carbon Source
Rupert, mSphere 2022 - “...EFG1 GCCACAAACGCCTCACAGTC GGCGTTTGTTGTCCCTGTTG CPAR2_213640 NDT80 CGTACCGCACAACCTCATC GCAACATCATCATCGGAGC CPAR2_205990 BCR1 CAATGCAAGTGTTGGTGGTGG GTGCTCGCAGTAACATTAGCG CPAR2_208600 CPH1 CGGTTACCCTGTGCAACAAC GATGTAGCGCGGCCATTGAC CPAR2_603440 CPH2 GAACGAAGAGGATACTACACAAG CTTCTTCCAAGTCTTTACAATCGG CPAR2_800210 GZF3 GCAACAGCAGCAGCGAG GTGTTGGAACCTCTCCTGG CPAR2_501290 CZF1 CCTCATCCGTACCAACAAC GACGGCATGTGAGACATCCC CPAR2_805930 TEC1 GCCAGAACTTCGATACCCGC GACCAGCGTCCAAACCTTG CPAR2_601080 FLO8 CTTCGTCAAATGCAACGGGG GTTGCCACCACCACCAAGAC CPAR2_803820 UME6 CAAATCGACGCCGTTATTGCC CCGAACCTGACACAAGCCCC CPAR2_204370 ACE2 CGACATTTAAAGGGCCACAG CCATGCCCTTTACCCCACC CPAR2_109520 TUP1 GCTGCTGGATCTTTAGATCGC...”
- The transcription factor Ndt80 is a repressor of Candida parapsilosis virulence attributes
Branco, Virulence 2021 - “...), CWH41 ( CPAR2_501400 ), STP3 ( CPAR2_200390 ), MKC1 ( CPAR2_800090 ), CPH2 ( CPAR2_603440 ), RHR2 ( CPAR2_503990 ), ACE2 ( CPAR2_204370 ), CPH2 ( CPAR2_603440 ), UME6 ( CPAR2_803820 ) and CZF1 ( CPAR2_501290 ). For each real-time quantitative PCR, five replicates per...”
XP_015148452 microphthalmia-associated transcription factor isoform X1 from Gallus gallus
37% identity, 16% coverage
XP_027323079 microphthalmia-associated transcription factor isoform X4 from Anas platyrhynchos
37% identity, 17% coverage
NP_570998 melanocyte inducing transcription factor a isoform 1 from Danio rerio
Q9PWC2 Melanocyte inducing transcription factor a isoform 1 from Danio rerio
39% identity, 17% coverage
- Embryonic expression of zebrafish MiT family genes tfe3b, tfeb, and tfec
Lister, Developmental dynamics : an official publication of the American Association of Anatomists 2011 - “...NP_035679; chicken Tfeb, NP_001026093; human TFEC, NP_036384; mouse Tfec, NP_112475; chicken Tfec, Q5XFQ6; zebrafish Mitfa, NP_570998; zebrafish Tfe3a, NP_571923; zebrafish Tfec, NP_001025276; yeast Rtg3p, NP_009447. The resulting msf file was used to build a phylogenetic tree with 1000 bootstraps using the protdist, neighbor, and consense programs...”
- The transcriptome of metamorphosing flatfish
Alves, BMC genomics 2016 - “...factor AP2 alpha 2 tfap2a Q8UVE5 Danio rerio 3E-55 lcst_c24989 Microphthalmia-associated transcription factor a mitfa Q9PWC2 Danio rerio 5E-24 lcst_rep_c15543 Presenilin-1 psen1 Q9W6T7 Danio rerio 2E-62 lcst_c2922 Adaptor-related protein complex AP-1, mu subunit 1 ap1m1 Q3UG16 Mus musculus 1E-81 Melanosome organization lcst_c31194 Tyrosinase related protein tyrp1...”
XP_013011968 microphthalmia-associated transcription factor isoform X1 from Cavia porcellus
37% identity, 16% coverage
MITF_HUMAN / O75030 Microphthalmia-associated transcription factor; Class E basic helix-loop-helix protein 32; bHLHe32 from Homo sapiens (Human) (see 20 papers)
37% identity, 16% coverage
- function: Transcription factor that acts as a master regulator of melanocyte survival and differentiation as well as melanosome biogenesis (PubMed:10587587, PubMed:22647378, PubMed:27889061, PubMed:9647758). Binds to M-boxes (5'-TCATGTG-3') and symmetrical DNA sequences (E-boxes) (5'-CACGTG-3') found in the promoter of pigmentation genes, such as tyrosinase (TYR) (PubMed:10587587, PubMed:22647378, PubMed:27889061, PubMed:9647758). Involved in the cellular response to amino acid availability by acting downstream of MTOR: in the presence of nutrients, MITF phosphorylation by MTOR promotes its inactivation (PubMed:36608670). Upon starvation or lysosomal stress, inhibition of MTOR induces MITF dephosphorylation, resulting in transcription factor activity (PubMed:36608670). Plays an important role in melanocyte development by regulating the expression of tyrosinase (TYR) and tyrosinase-related protein 1 (TYRP1) (PubMed:10587587, PubMed:22647378, PubMed:27889061, PubMed:9647758). Plays a critical role in the differentiation of various cell types, such as neural crest-derived melanocytes, mast cells, osteoclasts and optic cup-derived retinal pigment epithelium (PubMed:10587587, PubMed:22647378, PubMed:27889061, PubMed:9647758).
subunit: Homodimer or heterodimer; dimerization is mediated via the coiled coil region (PubMed:24631970). Efficient DNA binding requires dimerization with another bHLH protein (PubMed:14975237). Binds DNA in the form of homodimer or heterodimer with either TFE3, TFEB or TFEC (PubMed:15507434). Interacts with small GTPases Rag (RagA/RRAGA, RagB/RRAGB, RagC/RRAGC and/or RagD/RRAGD); promoting its recruitment to lysosomal membrane in the presence of nutrients (PubMed:23401004, PubMed:36608670). Interacts with KARS1 (PubMed:14975237). Identified in a complex with HINT1 and CTNNB1 (PubMed:22647378). Interacts with VSX2 (By similarity). - Predicting Which Mitophagy Proteins Are Dysregulated in Spinocerebellar Ataxia Type 3 (SCA3) Using the Auto-p2docking Pipeline.
Vieira, International journal of molecular sciences 2025 - “...(25) 59 TOMM7 (Q9P0U1; 54543) 39.344 (24) 44 AMBRA1 (Q9C0C7; 55626) 37.705 (23) 49 MITF (O75030; 4286) 36.066 (22) 49 SRC (P12931; 6714) 36.066 (22) 50 TBC1D15 (Q8TC07; 64786) 36.066 (22) 48 JNK (P45983; 5599) 22.951 (14) 57 E2F1 (Q01094; 1869) 21.311 (13) 74 MUL1 (Q969V5;...”
- “...55 NIX (O60238 #; 665) 68.852 (42) 57 MTX2 (O75431; 10651) 67.213 (41) 54 MITF (O75030; 4286) 65.574 (40) 59 RABGEF1 (Q9UJ41; 27342) 65.574 (40) 50 JNK (P45983; 5599) 62.295 (38) 50 ARIH1 (Q9Y4X5; 25820) 62.295 (38) 60 USP30 (Q70CQ3; 84749) 55.738 (34) 57 BCL2L13 (Q9BXK5...”
- Molecular mechanisms underlying Tao-Hong-Si-Wu decoction treating hyperpigmentation based on network pharmacology, Mendelian randomization analysis, and experimental verification
Chen, Pharmaceutical biology 2024 - “...1:1000 AB_2833336 AF0155 Affinity p-MAPK3 Antibody Rabbit P27361/P28482 1:1000 AB_2834432 AF1015 Affinity MITF Antibody Rabbit O75030 1:1000 AB_2834960 AF6027 Affinity MC1R Antibody Rabbit Q01726 1:1000 AB_2837351 DF4992 Affinity GAPDH Antibody Rabbit P04406 1:1000 AB_561053 2118 CST Goat Anti-Rabbit IgG H&L (HRP) Goat N/A 1:2000 AB_2819160 ab205718...”
- Computational biology and in vitro studies for anticipating cancer-related molecular targets of sweet wormwood (Artemisia annua)
Dawood, BMC complementary medicine and therapies 2023 - “...I TGFBR1 P37173 1,3(15),6,10-Farnesatetraen-14-ol; (Z)-form, Ac (0.112), 4-Cadinene-3,11-diol; (1,3xi,6,7,10)-form, 3-(2-Methylpropanoyl) (0.1115) Microphthalmia-associated transcription factor MITF O75030 Arteannuin B (1.0) Fibroblast growth factor 2 FGF2 P09038 2,5-Dihydroxy-3,3,4,7-tetramethoxyflavone (0.33) Vascular endothelial growth factor A VEGFA P15692 2,5-Dihydroxy-3,3,4,7-tetramethoxyflavone (0.33) Cytochrome P450 1A1 CYP1A1 P11511 O-(2-Glyceryl)coniferaldehyde (0.42), O-(2-Propenal)coniferaldehyde (0.43) c-Jun...”
- Interpreting the Molecular Mechanisms of Yinchenhao Decoction on Hepatocellular Carcinoma through Absorbed Components Based on Network Pharmacology
Sun, BioMed research international 2021 - “...Transcription factor AP-1 P05412 Tar063 LDLR Low-density lipoprotein receptor P01130 Tar064 MITF Microphthalmia-associated transcription factor O75030 Tar065 MMP2 Matrix metalloproteinase-2 P08253 Tar066 MMP7 Matrix metalloproteinase-7 P09237 Tar067 MPO Myeloperoxidase P05164 Tar068 NFKB1 Nuclear factor NF-kappa-B p105 subunit P19838 Tar069 NOS2 Nitric oxide synthase P35228 Tar070 NOX4...”
- Overexpressed VEPH1 inhibits epithelial-mesenchymal transition, invasion, and migration of human cutaneous melanoma cells through inactivating the TGF-β signaling pathway.
Feng, Cell cycle (Georgetown, Tex.) 2019 - Cytosolic phospholipase A2α modulates cell-matrix adhesion via the FAK/paxillin pathway in hepatocellular carcinoma.
Guo, Cancer biology & medicine 2019 - “...P05412, Q07817, P08238, P98170, Q04206, P55957, P60484, P46527, P07333, P11362, P08581, O14920, P17252, Q02750, P35222, O75030, O15111, Q13547, P10275, P09619, P51692, P04626, P31751, Q13158, P01106, P42345, P37231, P01100, Q9Y6K9, P46108, P07949, P23458, P19174, P19838, P24941, O15392, P10721, P04049, Q15796, Q05397, P42574, P00533, P40763, P31749 1.36E-29 hsa04151:PI3K-Akt...”
- “...P31749, P40763, Q05513 5.45E-14 hsa04380:osteoclast differentiation 36 1.81E-21 P17275, P06239, P42224, P07333, O14920, Q02750, Q06187, O75030, O15111, O43318, Q13094, P16885, P43405, P31751, P17535, P37231, P01100, Q9Y6K9, P15260, Q9UQC2, P23458, P25963, P19838, P05106, Q16566, Q8WV28, P16220, P63000, P05412, Q01201, P52630, Q04206, Q16539, P53539, O14733, P31749 2.27E-18 hsa04660:T...”
- 'Hotspots' of Antigen Presentation Revealed by Human Leukocyte Antigen Ligandomics for Neoantigen Prioritization.
Müller, Frontiers in immunology 2017 - “...(UniProt P13284), the semaphorin-4D (SEM4D) protein (Uniprot Q92854), and the microphthalmia-associated transcription factor (MITF, Uniprot O75030) (Figures 4 AC, respectively). More examples are provided in Figures S7AF in Supplementary Material. GILT is the only enzyme known to catalyze disulfide bond reduction in the endocytic pathway. It...”
- A Genome-Wide Association Study and Complex Network Identify Four Core Hub Genes in Bipolar Disorder.
Xie, International journal of molecular sciences 2017 - “...CUL4A 21 ENSG00000139842 Q13619 EFCAB13 21 ENSG00000178852 Q8IY85 LMO7 21 ENSG00000136153 Q8WWI1 MITF 21 ENSG00000187098 O75030 TRIM9 21 ENSG00000100505 Q9C026 CCND3 20 ENSG00000112576 P30281 EPHB1 20 ENSG00000154928 P54762 FARS2 20 ENSG00000145982 O95363 FBXO22 20 ENSG00000167196 Q8NEZ5 FLT3 20 ENSG00000122025 P36888 GATA4 20 ENSG00000136574 P43694 ITSN2 20...”
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NP_001033090 microphthalmia-associated transcription factor from Sus scrofa
37% identity, 20% coverage
AO090011000215, XP_001825886 uncharacterized protein from Aspergillus oryzae RIB40
43% identity, 20% coverage
- SclR, a basic helix-loop-helix transcription factor, regulates hyphal morphology and promotes sclerotial formation in Aspergillus oryzae
Jin, Eukaryotic cell 2011 - GeneRIF: observations indicate that SclR plays an important role in hyphal morphology, asexual conidiospore formation, and the promotion of sclerotial production, even retaining normal cell function, at least in submerged liquid cultur
- “...reported study, a novel bHLH protein-encoding gene (AO090011000215) of Aspergillus oryzae was identified. The genedisrupted strain was found to produce dense...”
- SclR, a basic helix-loop-helix transcription factor, regulates hyphal morphology and promotes sclerotial formation in Aspergillus oryzae.
Jin, Eukaryotic cell 2011 - GeneRIF: observations indicate that SclR plays an important role in hyphal morphology, asexual conidiospore formation, and the promotion of sclerotial production, even retaining normal cell function, at least in submerged liquid cultur
- “...reported study, a novel bHLH protein-encoding gene (AO090011000215) of Aspergillus oryzae was identified. The genedisrupted strain was found to produce dense...”
- Identification of a basic helix-loop-helix-type transcription regulator gene in Aspergillus oryzae by systematically deleting large chromosomal segments
Jin, Applied and environmental microbiology 2009 - GeneRIF: The AO090011000215 gene was predicted to encode a helix-loop-helix binding protein belonging to the bHLH family of transcription factors.
- “...Further deletion analysis allowed identification of the AO090011000215 gene as the gene responsible for the 5 mutant phenotype. The AO090011000215 gene...”
- Identification of a basic helix-loop-helix-type transcription regulator gene in Aspergillus oryzae by systematically deleting large chromosomal segments.
Jin, Applied and environmental microbiology 2009 - GeneRIF: The AO090011000215 gene was predicted to encode a helix-loop-helix binding protein belonging to the bHLH family of transcription factors.
- “...Further deletion analysis allowed identification of the AO090011000215 gene as the gene responsible for the 5 mutant phenotype. The AO090011000215 gene...”
XP_006196543 microphthalmia-associated transcription factor isoform X1 from Vicugna pacos
37% identity, 16% coverage
HLH30_CAEEL / H2KZZ2 Helix-loop-helix protein 30 from Caenorhabditis elegans (see 9 papers)
41% identity, 13% coverage
- function: Transcription factor which regulates the expression of genes involved in lipid metabolism and autophagy in response to nutrient availability, bacterial pore-forming toxins or heat shock (PubMed:23604316, PubMed:23925298, PubMed:27001890, PubMed:27875098, PubMed:28198373). Binds to the E-box motif 5'-CACGTG-3' (PubMed:19632181). Under fasting conditions, binds to the promoter and activates the expression of lipase genes lipl-2, lipl-3 and lipl-5, and to a lesser extent, lipl-1, thereby regulating lipolysis (PubMed:23604316). Involved in modulating longevity in response to TOR signaling, dietary restriction, germline signaling, heat shock and the insulin-like signaling pathway (PubMed:23925298, PubMed:24882217, PubMed:27001890, PubMed:28198373). Involved in the immune response to infection by the S.aureus bacterium, probably acting downstream of the protein kinase dkf-1, leading to the transcriptional activation of host defense genes (PubMed:24882217, PubMed:27184844). May also play a role in lysosomal biogenesis in response to nutrient availability (PubMed:23604316).
subunit: Homodimer.
disruption phenotype: RNAi-mediated knockdown in adults reduces lifespan on eat-2, daf-2 and rsks-1 mutant backgrounds (PubMed:23925298). RNAi-mediated knockdown during the fourth larval stage reduces lifespan on a clk-1 mutant background (PubMed:23925298). RNAi-mediated knockdown reduces the expression of mml-1 on a glp-1 mutant background (PubMed:27001890). RNAi-mediated knockdown increases expression of lmp-1 and sqst-1 (PubMed:23925298). - Short-Term Mild Temperature-Stress-Induced Alterations in the C. elegans Phosphoproteome
Huang, International journal of molecular sciences 2020 - “...GYSESRSpESpVSpSK 0.463 Peptide transporter family 1 (Di-/tri-peptide transporter CPTB) G5EFL5 alp-1 AAYHPQVNTpARPVSpVSpPAPSpAGSK 0.478 ALP/Enigma encoding H2KZZ2 hlh-30 QVVSSSpAPTSSIDIEK 0.654 Helix Loop Helix Q86DA5 tir-1 FLIQQDSpVVNPSTK 0.671 Sterile alpha and TIR motif-containing protein ijms-21-06409-t002_Table 2 Table 2 The aging-related phosphoproteins in C. elegans at high temperatures. Accession...”
NP_937802 microphthalmia-associated transcription factor isoform 1 from Homo sapiens
37% identity, 16% coverage
XP_005169362 transcription factor E3b isoform X1 from Danio rerio
41% identity, 13% coverage
NP_500461 Helix-loop-helix protein 30 from Caenorhabditis elegans
41% identity, 14% coverage
XP_005222683 microphthalmia-associated transcription factor isoform X3 from Bos taurus
XP_006055927 microphthalmia-associated transcription factor isoform X3 from Bubalus bubalis
37% identity, 16% coverage
NP_001269071 transcription factor E3 isoform 2 from Homo sapiens
42% identity, 13% coverage
XP_006527641 transcription factor E3 isoform X1 from Mus musculus
42% identity, 13% coverage
- The role of TFE3 in mediating skeletal muscle mitochondrial adaptations to exercise training.
Wong, Journal of applied physiology (Bethesda, Md. : 1985) 2024 (PubMed)- GeneRIF: The role of TFE3 in mediating skeletal muscle mitochondrial adaptations to exercise training.
- Dimorphic effect of TFE3 in determining mitochondrial and lysosomal content in muscle following denervation.
Oliveira, Skeletal muscle 2024 - GeneRIF: Dimorphic effect of TFE3 in determining mitochondrial and lysosomal content in muscle following denervation.
- TFEB and TFE3 drive kidney cystogenesis and tumorigenesis.
Di, EMBO molecular medicine 2023 - GeneRIF: TFEB and TFE3 drive kidney cystogenesis and tumorigenesis.
- TFEB and TFE3 control glucose homeostasis by regulating insulin gene expression.
Pasquier, The EMBO journal 2023 - GeneRIF: TFEB and TFE3 control glucose homeostasis by regulating insulin gene expression.
- Dectin-1/CARD9 induction of the TFEB and TFE3 gene network is dispensable for phagocyte anti-Aspergillus activity in the lung.
Aufiero, Infection and immunity 2023 - GeneRIF: Dectin-1/CARD9 induction of the TFEB and TFE3 gene network is dispensable for phagocyte anti-Aspergillus activity in the lung.
- Maintenance of neural stem-progenitor cells by the lysosomal biosynthesis regulators TFEB and TFE3 in the embryonic mouse telencephalon.
Yuizumi, Stem cells (Dayton, Ohio) 2021 (PubMed)- GeneRIF: Maintenance of neural stem-progenitor cells by the lysosomal biosynthesis regulators TFEB and TFE3 in the embryonic mouse telencephalon.
- TFE3, a potential therapeutic target for Spinal Cord Injury via augmenting autophagy flux and alleviating ER stress.
Zhou, Theranostics 2020 - GeneRIF: TFE3, a potential therapeutic target for Spinal Cord Injury via augmenting autophagy flux and alleviating ER stress.
- Lysosomal Signaling Licenses Embryonic Stem Cell Differentiation via Inactivation of Tfe3.
Villegas, Cell stem cell 2019 (PubMed)- GeneRIF: lysosome activity, the Ragulator protein complex, and the tumor-suppressor protein Folliculin enable the Rag GTPases C and D to bind and seclude the bHLH transcription factor Tfe3 in the cytoplasm.
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D3ZAW6 Transcription factor binding to IGHM enhancer 3 from Rattus norvegicus
38% identity, 15% coverage
NP_001093747 microphthalmia-associated transcription factor from Xenopus tropicalis
37% identity, 17% coverage
NP_766060 transcription factor E3 isoform a from Mus musculus
42% identity, 10% coverage
- Embryonic expression of zebrafish MiT family genes tfe3b, tfeb, and tfec
Lister, Developmental dynamics : an official publication of the American Association of Anatomists 2011 - “...1, NP_937802; mouse Mitf isoform 2, NP_032627; chicken Mitf, BAA25648; human TFE3, NP_006512; mouse Tfe3, NP_766060; human TFEB, NP_001161299; mouse Tfeb isoform a, NP_035679; chicken Tfeb, NP_001026093; human TFEC, NP_036384; mouse Tfec, NP_112475; chicken Tfec, Q5XFQ6; zebrafish Mitfa, NP_570998; zebrafish Tfe3a, NP_571923; zebrafish Tfec, NP_001025276; yeast...”
TFE3_HUMAN / P19532 Transcription factor E3; Class E basic helix-loop-helix protein 33; bHLHe33 from Homo sapiens (Human) (see 17 papers)
NP_006512 transcription factor E3 isoform 1 from Homo sapiens
42% identity, 10% coverage
- function: Transcription factor that acts as a master regulator of lysosomal biogenesis and immune response (PubMed:2338243, PubMed:24448649, PubMed:29146937, PubMed:30733432, PubMed:31672913, PubMed:37079666). Specifically recognizes and binds E-box sequences (5'-CANNTG-3'); efficient DNA-binding requires dimerization with itself or with another MiT/TFE family member such as TFEB or MITF (PubMed:24448649). Involved in the cellular response to amino acid availability by acting downstream of MTOR: in the presence of nutrients, TFE3 phosphorylation by MTOR promotes its inactivation (PubMed:24448649, PubMed:31672913, PubMed:36608670). Upon starvation or lysosomal stress, inhibition of MTOR induces TFE3 dephosphorylation, resulting in transcription factor activity (PubMed:24448649, PubMed:31672913, PubMed:36608670). Specifically recognizes and binds the CLEAR-box sequence (5'-GTCACGTGAC-3') present in the regulatory region of many lysosomal genes, leading to activate their expression, thereby playing a central role in expression of lysosomal genes (PubMed:24448649). Maintains the pluripotent state of embryonic stem cells by promoting the expression of genes such as ESRRB; mTOR- dependent TFE3 cytosolic retention and inactivation promotes exit from pluripotency (By similarity). Required to maintain the naive pluripotent state of hematopoietic stem cell; mTOR-dependent cytoplasmic retention of TFE3 promotes the exit of hematopoietic stem cell from pluripotency (PubMed:30733432). TFE3 activity is also involved in the inhibition of neuronal progenitor differentiation (By similarity). Acts as a positive regulator of browning of adipose tissue by promoting expression of target genes; mTOR-dependent phosphorylation promotes cytoplasmic retention of TFE3 and inhibits browning of adipose tissue (By similarity). In association with TFEB, activates the expression of CD40L in T-cells, thereby playing a role in T-cell- dependent antibody responses in activated CD4(+) T-cells and thymus- dependent humoral immunity (By similarity). Specifically recognizes the MUE3 box, a subset of E-boxes, present in the immunoglobulin enhancer (PubMed:2338243). It also binds very well to a USF/MLTF site (PubMed:2338243). Promotes TGF-beta-induced transcription of COL1A2; via its interaction with TSC22D1 at E-boxes in the gene proximal promoter (By similarity). May regulate lysosomal positioning in response to nutrient deprivation by promoting the expression of PIP4P1 (PubMed:29146937).
subunit: Homodimer and heterodimer; with TFEB or MITF (PubMed:15507434, PubMed:1748288). Interacts with RRAGC/RagC GDP-bound and RRAGD/RagD GDP-bound; promoting its recruitment to lysosomal membrane in the presence of nutrients (PubMed:24448649, PubMed:36608670). Interacts with TSC22D1; the interaction is enhanced in the presence of TGF-beta (By similarity). - Embryonic expression of zebrafish MiT family genes tfe3b, tfeb, and tfec
Lister, Developmental dynamics : an official publication of the American Association of Anatomists 2011 - “...human MITF isoform 1, NP_937802; mouse Mitf isoform 2, NP_032627; chicken Mitf, BAA25648; human TFE3, NP_006512; mouse Tfe3, NP_766060; human TFEB, NP_001161299; mouse Tfeb isoform a, NP_035679; chicken Tfeb, NP_001026093; human TFEC, NP_036384; mouse Tfec, NP_112475; chicken Tfec, Q5XFQ6; zebrafish Mitfa, NP_570998; zebrafish Tfe3a, NP_571923; zebrafish...”
- Predicting Which Mitophagy Proteins Are Dysregulated in Spinocerebellar Ataxia Type 3 (SCA3) Using the Auto-p2docking Pipeline.
Vieira, International journal of molecular sciences 2025 - “...(43) 52 RAB7B (Q96AH8; 338382) 62.295 (38) 50 TOMM40 (O96008; 10452) 57.377 (35) 50 TFE3 (P19532; 7030) 57.377 (35) 78 MON1B (Q7L1V2; 22879) 57.377 (35) 56 CITED2 (Q99967; 10370) 57.377 (35) 66 NLRX1 (Q86UT6; 79671) 54.098 (33) 36 NDP52 (Q13137; 10241) 50.820 (31) 57 NBR1 (Q14596;...”
- “...(62; 78) MFN2 (O95140; 9927) 27.083 (48; 61) NIX (O60238; 665) 32.558 (43; 57) TFE3 (P19532; 7030) 36.842 (57; 78) TBK1 (Q9UHD2; 29110) 40.541 (37; 52) $increase, in percentage, of the number of interfacing residues when comparing expanded (first number within brackets) and WT (last number...”
- 14-3-3 Proteins are Potential Regulators of Liquid-Liquid Phase Separation.
Huang, Cell biochemistry and biophysics 2022 - “...105 , 154 157 , 159 , 160 , 179 , 243 251 ] TFE3 P19532 Transcription factor LLPS in cells. [ 252 ] TFEB P19484 Transcription factor LLPS in vitro and in cells. [ 253 ] UBQLN4 Q9NRR5 Cellular signaling LLPS in vitro. [ 254...”
- Serum Glycoproteomics and Identification of Potential Mechanisms Underlying Alzheimer's Disease
Kerdsaeng, Behavioural neurology 2021 - “...Ser-136 by MAPK14/p38-alpha-activated MAPKAPK2/MK2 P48729 Casein kinase I isoform alpha (CKI-alpha) (EC 2.7.11.1) (CK1) 38,915 P19532 Transcription factor E3 (class E basic helix-loop-helix protein 33) (bHLHe33) 61,521 PTM: phosphorylation by MTOR regulates its subcellular location and activity Q8WXH4 Ankyrin repeat and SOCS box protein 11 (ASB-11)...”
- Identification and characterization of human leukocyte antigen class I ligands in renal cell carcinoma cells.
Seliger, Proteomics 2011 - “...488.8056 488.8 GPRAVFVLL B * 07 Transcription factor binding to IGHM enhancer 3 7030 TFE3 P19532 1826 125.5 49.9 971.5961 486.2981 486.28 APRPGLLSL B * 07 Widely interspaced zinc finger motifs 58525 WIZ Q96IG5 8088 76.3 43.7 923.5596 462.2798 462.3 ISVGISLLLL B * 07? GRB2-binding adaptor...”
- Phylogenetic analysis of the human basic helix-loop-helix proteins
Ledent, Genome biology 2002 - “...SRC2 NT_023676.3 8p22-q21 Q9Y6Q9 SRC3 SRC SRC3 NT_011371.3 20q12 O75030 MITF MITF MITF NT_005510.3 3p12-p14 P19532 TFE3 MITF TFE3 NT_011611.3 Xp11 P19484 TFEB MITF TFEB NT_023409.3 6p21 O14948 TFEC1 MITF TFEC NT_026338.1 7 N009714 TFEC2 * MITF TFEC NT_009714.3 12p11-q14 P36956 SREBP1 SREBP SREBP1 NT_010657.3 17p11.2...”
- “...gb|AAB01228.1 SRC2 SRC Q15596 gb|AAB06177.1 SRC3 SRC Q9Y6Q9 sp|O09000 MITF MITF O75030 gb|AAF81266.1 TFE3 MITF P19532 gb|AAB21130.1 TFEB MITF P19484 gb|AAD20979.1 TFEC MITF N009714/O14948 gb|AAD24426.1 SREBP1 SREBP P36956 dbj|BAA74795.1 SREBP2 SREBP Q12772 gb|AAG01859.1 USF1 USF P22415 emb|CAA64627.1 USF2 USF Q15853/N026304 pir||A56522 Mlx MLX Q9NP71 gb|AAK20940.1 TF4...”
- Subfunctionalization of duplicate mitf genes associated with differential degeneration of alternative exons in fish
Altschmied, Genetics 2002 - “...AAF67467; TFE3a D. rerio, AAK95589; TFE3 H. sapiens, P19532; TFE3 M. musculus, Q64092; TFEB H. sapiens, CAB54146; TFEB M. musculus, NP_035679; TFEC M. musculus,...”
- Single exchanges of amino acids in the basic region change the specificity of N-Myc
Feldmann, Nucleic acids research 1993 - “...PHO (Accession number: P07270), TFE3 (Accession number: P19532), E(SPL)M7 (Accession number: P13097), MAX (Accession number: P25912), S-MYC (Accession number:...”
TFE3_MOUSE / Q64092 Transcription factor E3; mTFE3 from Mus musculus (Mouse) (see 7 papers)
42% identity, 10% coverage
- function: Transcription factor that acts as a master regulator of lysosomal biogenesis and immune response (PubMed:16936731, PubMed:29146937). Specifically recognizes and binds E-box sequences (5'-CANNTG-3'); efficient DNA-binding requires dimerization with itself or with another MiT/TFE family member such as TFEB or MITF (PubMed:16936731). Involved in the cellular response to amino acid availability by acting downstream of MTOR: in the presence of nutrients, TFE3 phosphorylation by MTOR promotes its inactivation (PubMed:27913603). Upon starvation or lysosomal stress, inhibition of MTOR induces TFE3 dephosphorylation, resulting in transcription factor activity (PubMed:27913603). Specifically recognizes and binds the CLEAR-box sequence (5'-GTCACGTGAC-3') present in the regulatory region of many lysosomal genes, leading to activate their expression, thereby playing a central role in expression of lysosomal genes (By similarity). Maintains the pluripotent state of embryonic stem cells by promoting the expression of genes such as ESRRB; mTOR-dependent TFE3 cytosolic retention and inactivation promotes exit from pluripotency (PubMed:23582324). Required to maintain the naive pluripotent state of hematopoietic stem cell; mTOR-dependent cytoplasmic retention of TFE3 promotes the exit of hematopoietic stem cell from pluripotency (By similarity). TFE3 activity is also involved in the inhibition of neuronal progenitor differentiation (PubMed:30595499). Acts as a positive regulator of browning of adipose tissue by promoting expression of target genes; mTOR-dependent phosphorylation promotes cytoplasmic retention of TFE3 and inhibits browning of adipose tissue (PubMed:27913603). In association with TFEB, activates the expression of CD40L in T-cells, thereby playing a role in T-cell-dependent antibody responses in activated CD4(+) T-cells and thymus-dependent humoral immunity (PubMed:16936731). Specifically recognizes the MUE3 box, a subset of E-boxes, present in the immunoglobulin enhancer (By similarity). It also binds very well to a USF/MLTF site (By similarity). Promotes TGF-beta-induced transcription of COL1A2; via its interaction with TSC22D1 at E-boxes in the gene proximal promoter (PubMed:20713358). May regulate lysosomal positioning in response to nutrient deprivation by promoting the expression of PIP4P1 (PubMed:29146937).
subunit: Homodimer and heterodimer; with TFEB or MITF (By similarity). Interacts with RRAGC/RagC GDP-bound and RRAGD/RagD GDP-bound; promoting its recruitment to lysosomal membrane in the presence of nutrients (PubMed:30595499). Interacts with TSC22D1; the interaction is enhanced in the presence of TGF-beta (PubMed:20713358).
Q3UKG7 Transcription factor EB from Mus musculus
NP_035679 transcription factor EB isoform a from Mus musculus
36% identity, 14% coverage
- PIKfyve Deficiency in Myeloid Cells Impairs Lysosomal Homeostasis in Macrophages and Promotes Systemic Inflammation in Mice
Min, Molecular and cellular biology 2019 (secret) - Embryonic expression of zebrafish MiT family genes tfe3b, tfeb, and tfec
Lister, Developmental dynamics : an official publication of the American Association of Anatomists 2011 - “...Mitf, BAA25648; human TFE3, NP_006512; mouse Tfe3, NP_766060; human TFEB, NP_001161299; mouse Tfeb isoform a, NP_035679; chicken Tfeb, NP_001026093; human TFEC, NP_036384; mouse Tfec, NP_112475; chicken Tfec, Q5XFQ6; zebrafish Mitfa, NP_570998; zebrafish Tfe3a, NP_571923; zebrafish Tfec, NP_001025276; yeast Rtg3p, NP_009447. The resulting msf file was used...”
- Subfunctionalization of duplicate mitf genes associated with differential degeneration of alternative exons in fish
Altschmied, Genetics 2002 - “...Q64092; TFEB H. sapiens, CAB54146; TFEB M. musculus, NP_035679; TFEC M. musculus, AF077742; TFEC H. sapiens, D43945; TFE Caenorhabditis elegans, AAB37997. fish...”
An14g02540 uncharacterized protein from Aspergillus niger
34% identity, 26% coverage
- Identification and Characterization of a Novel Basic Helix-Loop-Helix Transcription Factor of Phospholipid Synthesis Regulation in Aspergillus niger
Dong, Frontiers in microbiology 2019 - “...bHLH genes ( An0204350 , An03g04180 , An03g05170 , An08g01380 , An08g04000 , An09g06630 , An14g02540 , An15g03490 , and An01g13950 ) and opi1(An15g02370) were amplified. The PCR products were then constructed into the linearized plasmid pGADT7 AD (Takara, Otsu, Japan), which was digested with Eco...”
- “...previously discovered ( An08g04000 , An15g03490 , An01g13950 , An09g06630 , An03g04180 , An08g01380 , An14g02540 , and An03g05170 ; Pel et al., 2007 ) by itself in A. niger. In S. cerevisiae , ino2 and ino4 are two bHLH family TFs, the proteins of which...”
- The Effect of Aspergillus Thermomutatus Chrysovirus 1 on the Biology of Three Aspergillus Species
Ejmal, Viruses 2018 - “...role in positive regulation of conidiophore development and conidium formation ( www.aspergillusgenome.org ). In addition, An14g02540, the orthologue of the sclerotium regulator in A. oryzae ( sclR /AO090011000215), that encodes a transcription factor with a role in hyphal morphology and the promotion of sclerotial production [...”
- Multi-omics integrative analysis with genome-scale metabolic model simulation reveals global cellular adaptation of Aspergillus niger under industrial enzyme production condition
Lu, Scientific reports 2018 - “...SREBPs 31 . In A. niger , the corresponding genes are srbA (An03g05170) and srbB (An14g02540), respectively 32 . In this work, the expression of the former was down-regulated first and then was up-regulated (in cluster 14) while the expression of the latter was continuously elevated...”
NP_001165646 melanocyte inducing transcription factor L homeolog from Xenopus laevis
36% identity, 17% coverage
NP_996888 upstream stimulatory factor 1 isoform 2 from Homo sapiens
40% identity, 25% coverage
NP_032627 microphthalmia-associated transcription factor isoform 2 from Mus musculus
37% identity, 20% coverage
- Embryonic expression of zebrafish MiT family genes tfe3b, tfeb, and tfec
Lister, Developmental dynamics : an official publication of the American Association of Anatomists 2011 - “...number for the sequences used were: human MITF isoform 1, NP_937802; mouse Mitf isoform 2, NP_032627; chicken Mitf, BAA25648; human TFE3, NP_006512; mouse Tfe3, NP_766060; human TFEB, NP_001161299; mouse Tfeb isoform a, NP_035679; chicken Tfeb, NP_001026093; human TFEC, NP_036384; mouse Tfec, NP_112475; chicken Tfec, Q5XFQ6; zebrafish...”
NP_001020878 transcription factor EB from Rattus norvegicus
36% identity, 14% coverage
- Transcription factor EB-mediated autophagy affects cell migration and inhibits apoptosis to promote endometriosis.
Chen, Apoptosis : an international journal on programmed cell death 2024 (PubMed)- GeneRIF: Transcription factor EB-mediated autophagy affects cell migration and inhibits apoptosis to promote endometriosis.
- The Estrogen Receptor-Related Orphan Receptors Regulate Autophagy through TFEB.
Losby, Molecular pharmacology 2024 - GeneRIF: The Estrogen Receptor-Related Orphan Receptors Regulate Autophagy through TFEB.
- Transcription factor EB (TFEB) promotes autophagy in early brain injury after subarachnoid hemorrhage in rats.
Lu, Neurosurgical review 2024 (PubMed)- GeneRIF: Transcription factor EB (TFEB) promotes autophagy in early brain injury after subarachnoid hemorrhage in rats.
- Impaired TFEB activation and mitophagy as a cause of PPP3/calcineurin inhibitor-induced pancreatic β-cell dysfunction.
Park, Autophagy 2023 - GeneRIF: Impaired TFEB activation and mitophagy as a cause of PPP3/calcineurin inhibitor-induced pancreatic beta-cell dysfunction.
- The inhibition of TRPML1/TFEB leads to lysosomal biogenesis disorder, contributes to developmental fluoride neurotoxicity.
Zhang, Ecotoxicology and environmental safety 2023 (PubMed)- GeneRIF: The inhibition of TRPML1/TFEB leads to lysosomal biogenesis disorder, contributes to developmental fluoride neurotoxicity.
- Phosphorylation of STAT3 at Tyr705 contributes to TFEB-mediated autophagy-lysosomal pathway dysfunction and leads to ischemic injury in rats.
Liu, Cellular and molecular life sciences : CMLS 2023 - GeneRIF: Phosphorylation of STAT3 at Tyr705 contributes to TFEB-mediated autophagy-lysosomal pathway dysfunction and leads to ischemic injury in rats.
- Transcription factor EB (TFEB) improves ventricular remodeling after myocardial infarction by inhibiting Wnt/β-catenin signaling pathway.
Liu, PeerJ 2023 - GeneRIF: Transcription factor EB (TFEB) improves ventricular remodeling after myocardial infarction by inhibiting Wnt/beta-catenin signaling pathway.
- TFEB regulates cellular labile iron and prevents ferroptosis in a TfR1-dependent manner.
Chen, Free radical biology & medicine 2023 (PubMed)- GeneRIF: TFEB regulates cellular labile iron and prevents ferroptosis in a TfR1-dependent manner.
- More
7d8tA / O66738,O75030 Mitf bhlhlz complex with m-box DNA (see paper)
40% identity, 30% coverage
MITF_RAT / O88368 Microphthalmia-associated transcription factor from Rattus norvegicus (Rat) (see paper)
37% identity, 16% coverage
- function: Transcription factor that regulates the expression of genes with essential roles in cell differentiation, proliferation and survival. Binds to M-boxes (5'-TCATGTG-3') and symmetrical DNA sequences (E-boxes) (5'-CACGTG-3') found in the promoters of target genes, such as BCL2 and tyrosinase (TYR). Plays an important role in melanocyte development by regulating the expression of tyrosinase (TYR) and tyrosinase-related protein 1 (TYRP1). Plays a critical role in the differentiation of various cell types, such as neural crest-derived melanocytes, mast cells, osteoclasts and optic cup-derived retinal pigment epithelium.
subunit: Homodimer or heterodimer; dimerization is mediated via the coiled coil region (By similarity). Efficient DNA binding requires dimerization with another bHLH protein (By similarity). Binds DNA in the form of homodimer or heterodimer with either TFE3, TFEB or TFEC (By similarity). Identified in a complex with HINT1 and CTNNB1 (By similarity). Interacts with KARS1 (By similarity). Interacts with VSX2 (By similarity).
NP_001161299 transcription factor EB isoform 2 from Homo sapiens
36% identity, 16% coverage
- LncRNA XXYLT1-AS2 promotes tumor progression via autophagy inhibition through ubiquitinated degradation of TFEB in hepatocellular carcinoma.
Li, Clinical & translational oncology : official publication of the Federation of Spanish Oncology Societies and of the National Cancer Institute of Mexico 2024 (PubMed)- GeneRIF: LncRNA XXYLT1-AS2 promotes tumor progression via autophagy inhibition through ubiquitinated degradation of TFEB in hepatocellular carcinoma.
- ABCG2 is an itaconate exporter that limits antibacterial innate immunity by alleviating TFEB-dependent lysosomal biogenesis.
Chen, Cell metabolism 2024 (PubMed)- GeneRIF: ABCG2 is an itaconate exporter that limits antibacterial innate immunity by alleviating TFEB-dependent lysosomal biogenesis.
- TFEB regulates the odontoblastic differentiation of dental pulp stem cells by promoting a positive feedback loop between mitophagy and glycolysis.
Li, Archives of oral biology 2024 (PubMed)- GeneRIF: TFEB regulates the odontoblastic differentiation of dental pulp stem cells by promoting a positive feedback loop between mitophagy and glycolysis.
- Transcription factor EB-mediated autophagy affects cell migration and inhibits apoptosis to promote endometriosis.
Chen, Apoptosis : an international journal on programmed cell death 2024 (PubMed)- GeneRIF: Transcription factor EB-mediated autophagy affects cell migration and inhibits apoptosis to promote endometriosis.
- A SPLICS reporter reveals [Formula: see text]-synuclein regulation of lysosome-mitochondria contacts which affects TFEB nuclear translocation.
Giamogante, Nature communications 2024 - GeneRIF: A SPLICS reporter reveals [Formula: see text]-synuclein regulation of lysosome-mitochondria contacts which affects TFEB nuclear translocation.
- Impaired TFEB-mediated autophagy-lysosome fusion promotes tubular cell cycle G2/M arrest and renal fibrosis by suppressing ATP6V0C expression and interacting with SNAREs.
Ren, International journal of biological sciences 2024 - GeneRIF: Impaired TFEB-mediated autophagy-lysosome fusion promotes tubular cell cycle G2/M arrest and renal fibrosis by suppressing ATP6V0C expression and interacting with SNAREs.
- Altered TFEB subcellular localization in nigral neurons of subjects with incidental, sporadic and GBA-related Lewy body diseases.
Moors, Acta neuropathologica 2024 - GeneRIF: Altered TFEB subcellular localization in nigral neurons of subjects with incidental, sporadic and GBA-related Lewy body diseases.
- TFEB regulates dendritic cell antigen presentation to modulate immune balance in asthma.
Xiang, Respiratory research 2024 - GeneRIF: TFEB regulates dendritic cell antigen presentation to modulate immune balance in asthma.
- More
TFEB_HUMAN / P19484 Transcription factor EB; Class E basic helix-loop-helix protein 35; bHLHe35 from Homo sapiens (Human) (see 27 papers)
NP_001258873 transcription factor EB isoform 1 from Homo sapiens
36% identity, 16% coverage
- function: Transcription factor that acts as a master regulator of lysosomal biogenesis, autophagy, lysosomal exocytosis, lipid catabolism, energy metabolism and immune response (PubMed:21617040, PubMed:22343943, PubMed:22576015, PubMed:22692423, PubMed:25720963, PubMed:30120233, PubMed:31672913, PubMed:32612235, PubMed:32753672, PubMed:35662396, PubMed:36697823, PubMed:36749723, PubMed:37079666). Specifically recognizes and binds E-box sequences (5'-CANNTG-3'); efficient DNA-binding requires dimerization with itself or with another MiT/TFE family member such as TFE3 or MITF (PubMed:1748288, PubMed:19556463, PubMed:29146937). Involved in the cellular response to amino acid availability by acting downstream of MTOR: in the presence of nutrients, TFEB phosphorylation by MTOR promotes its cytosolic retention and subsequent inactivation (PubMed:21617040, PubMed:22343943, PubMed:22576015, PubMed:22692423, PubMed:25720963, PubMed:32612235, PubMed:32753672, PubMed:35662396, PubMed:36697823). Upon starvation or lysosomal stress, inhibition of MTOR induces TFEB dephosphorylation, resulting in nuclear localization and transcription factor activity (PubMed:22343943, PubMed:22576015, PubMed:22692423, PubMed:25720963, PubMed:32612235, PubMed:32753672, PubMed:35662396, PubMed:36697823). Specifically recognizes and binds the CLEAR-box sequence (5'-GTCACGTGAC-3') present in the regulatory region of many lysosomal genes, leading to activate their expression, thereby playing a central role in expression of lysosomal genes (PubMed:19556463, PubMed:22692423). Regulates lysosomal positioning in response to nutrient deprivation by promoting the expression of PIP4P1 (PubMed:29146937). Acts as a positive regulator of autophagy by promoting expression of genes involved in autophagy (PubMed:21617040, PubMed:22576015, PubMed:23434374, PubMed:27278822). In association with TFE3, activates the expression of CD40L in T-cells, thereby playing a role in T-cell-dependent antibody responses in activated CD4(+) T-cells and thymus-dependent humoral immunity (By similarity). Specifically recognizes the gamma-E3 box, a subset of E-boxes, present in the heavy- chain immunoglobulin enhancer (PubMed:2115126). Plays a role in the signal transduction processes required for normal vascularization of the placenta (By similarity). Involved in the immune response to infection by the bacteria S.aureus, S.typhimurium or S.enterica: infection promotes itaconate production, leading to alkylation, resulting in nuclear localization and transcription factor activity (PubMed:35662396). Itaconate-mediated alkylation activates TFEB- dependent lysosomal biogenesis, facilitating the bacteria clearance during the antibacterial innate immune response (PubMed:35662396). In association with ACSS2, promotes the expression of genes involved in lysosome biogenesis and both autophagy upon glucose deprivation (PubMed:28552616).
subunit: Homodimer and heterodimer; with TFE3 or MITF (PubMed:15507434, PubMed:1748288). Interacts (when phosphorylated by MTOR) with YWHAZ; promoting retention in the cytosol (PubMed:35662396). Interacts with IRGM; promoting association between TFEB and PPP3CB and dephosphorylation (PubMed:32753672). Interacts with small GTPases Rag (RagA/RRAGA, RagB/RRAGB, RagC/RRAGC and/or RagD/RRAGD); promoting its recruitment to lysosomal membrane in the presence of nutrients (PubMed:23401004). Interacts with ACSS2 (PubMed:28552616). - Targeted proteomics addresses selectivity and complexity of protein degradation by autophagy.
Leytens, Autophagy 2025 - “...Tax1 binding protein 1 Q86VP1 TAX1BP1 Ubiquitinated substrate receptor [ 37 ] Transcription factor EB P19484 TFEB Lysosomal biogenesis [ 1 ] TNFAIP3 interacting protein 1 Q15025 TNIP1 Autophagy receptor [ 17 ] Toll interacting protein Q9H0E2 TOLLIP Ubiquitinated substrate receptor [ 38 ] Unc-51 like...”
- Predicting Which Mitophagy Proteins Are Dysregulated in Spinocerebellar Ataxia Type 3 (SCA3) Using the Auto-p2docking Pipeline.
Vieira, International journal of molecular sciences 2025 - “...interactors (OPTN (Q96CV9; 10133); BCL2L13 (Q9BXK5; 23786); NIX (O60238; 665); ATG9B (Q674R7; 285973); and TFEB (P19484; 7942)), and we found 11 (35.5%) out of 31 to be likely ataxin-3 interactors, since, for these, more than 50% of the ataxin-3 residues in the IR defined in [...”
- “...(30) 62 AMBRA1 (Q9C0C7; 55626) 24.590 (15) 55 SRC (P12931; 6714) 18.033 (11) 37 TFEB (P19484 #; 7942) 9.836 (6) 58 HIF1 (Q16665; 3091) 8.197 (5) 51 PERK (Q9NZJ5; 9451) 6.557 (4) 63 OPTN (Q96CV9 #; 10133) 1.639 (1) 42 # ataxin-3 interactors for which docking...”
- Targeted dephosphorylation of TFEB promotes its nuclear translocation.
Zhao, iScience 2024 - “...change p -value CEP152 O94986 HLNSLPR 0.689 0.008 DENND4B O75064 GSPVPWHDGSLSDLSLTGEEPLPGG SPGGSGSALSAQSTEALEGLSGR 0.688 0.004 TFEB P19484 DLDLMLLDDSLLPLASDPLLSTMSPEASK 0.667 0.012 VHGLPTTSPSGMNMAELAQQVVK 0.791 0.033 Values of hypo-phosphorylated phospho-peptides identified (out of a total of 30,278 unique phospho-peptides detected) from global analysis of BDPIC-treated TFEB dTAG/dTAG / bromoTAG/+ PPP2CA...”
- Neurological Sequelae of COVID-19: A Biochemical Perspective.
Zhang, ACS omega 2023 - “...serum amyloid A-1 protein P0DJI8 7.38 6.56 32.79 13.11 14.75 14.75 TFEB transcription factor EB P19484 1.68 11.13 48.95 11.97 13.03 9.87 a The plasma proteome distribution triggered by SARS-CoV-2 infection spanned at least 6 weeks after the initial positive PCR assay. 19 The valine plus...”
- 14-3-3 Proteins are Potential Regulators of Liquid-Liquid Phase Separation.
Huang, Cell biochemistry and biophysics 2022 - “..., 243 251 ] TFE3 P19532 Transcription factor LLPS in cells. [ 252 ] TFEB P19484 Transcription factor LLPS in vitro and in cells. [ 253 ] UBQLN4 Q9NRR5 Cellular signaling LLPS in vitro. [ 254 ] USP42 Q9H9J4 Deubiquitinating enzyme LLPS in vitro and in...”
- RNA-Sequencing of Heterorhabditis nematodes to identify factors involved in symbiosis with Photorhabdus bacteria.
Bhat, BMC genomics 2022 - “...(P34713) 31. pnr (P52168) 71. SLC17A5 (Q9NRA2) 32. fos-1 (G5ECG2) 72. aqp-10 (Q09369) 33. TFEB (P19484) 73. AQP3 (Q08DE6) 34. PAX5 (Q02548) Mucosa associated protein Phospholipases (lipolytic) 74. MALT1 (Q9UDY8) 35. PLA2G1B (P00593) 75. Cad99C (Q9VAF5) 36. PLA2G6 (O60733) 76. MR1 (C1ITJ8) 37. plc-1 (G5EFI8) Antimicrobial...”
- Phylogenetic analysis of the human basic helix-loop-helix proteins
Ledent, Genome biology 2002 - “...SRC3 NT_011371.3 20q12 O75030 MITF MITF MITF NT_005510.3 3p12-p14 P19532 TFE3 MITF TFE3 NT_011611.3 Xp11 P19484 TFEB MITF TFEB NT_023409.3 6p21 O14948 TFEC1 MITF TFEC NT_026338.1 7 N009714 TFEC2 * MITF TFEC NT_009714.3 12p11-q14 P36956 SREBP1 SREBP SREBP1 NT_010657.3 17p11.2 Q12772 SREBP2 SREBP SREBP2 NT_011520.3 22q13...”
- “...gb|AAB06177.1 SRC3 SRC Q9Y6Q9 sp|O09000 MITF MITF O75030 gb|AAF81266.1 TFE3 MITF P19532 gb|AAB21130.1 TFEB MITF P19484 gb|AAD20979.1 TFEC MITF N009714/O14948 gb|AAD24426.1 SREBP1 SREBP P36956 dbj|BAA74795.1 SREBP2 SREBP Q12772 gb|AAG01859.1 USF1 USF P22415 emb|CAA64627.1 USF2 USF Q15853/N026304 pir||A56522 Mlx MLX Q9NP71 gb|AAK20940.1 TF4 TF4 Q9UH92 gb|AAB51368.1 Bmal1...”
- Spectrum of diverse genomic alterations define non-clear cell renal carcinoma subtypes
Durinck, Nature genetics 2015 - “...helix-loop-helix domain; L, leucine zipper. Accession codes for the proteins depicted: CLTC, NP_004850.1; TFEB, P19484.3 (NP_001258873); ACTG1, NP_001186883.1; MITF, NP_937802.1. Figure 5 ACTG1-MITF gene fusion promotes anchorage-independent growth. ( a ) Expression of MITF target genes in HEK293T cells expressing wild-type MITF or the ACTG1-MITF fusion...”
MITF_MOUSE / Q08874 Microphthalmia-associated transcription factor from Mus musculus (Mouse) (see 7 papers)
37% identity, 16% coverage
- function: Transcription factor that acts as a master regulator of melanocyte survival and differentiation as well as melanosome biogenesis (By similarity). Binds to M-boxes (5'-TCATGTG-3') and symmetrical DNA sequences (E-boxes) (5'-CACGTG-3') found in the promoter of pigmentation genes, such as tyrosinase (TYR) (By similarity). Involved in the cellular response to amino acid availability by acting downstream of MTOR: in the presence of nutrients, MITF phosphorylation by MTOR promotes its inactivation (By similarity). Upon starvation or lysosomal stress, inhibition of MTOR induces MITF dephosphorylation, resulting in transcription factor activity (By similarity). Plays an important role in melanocyte development by regulating the expression of tyrosinase (TYR) and tyrosinase-related protein 1 (TYRP1) (By similarity). Plays a critical role in the differentiation of various cell types, such as neural crest-derived melanocytes, mast cells, osteoclasts and optic cup- derived retinal pigment epithelium (By similarity).
subunit: Homodimer or heterodimer; dimerization is mediated via the coiled coil region (PubMed:23207919). Efficient DNA binding requires dimerization with another bHLH protein (PubMed:23207919). Binds DNA in the form of homodimer or heterodimer with either TFE3, TFEB or TFEC (PubMed:23207919). Interacts with small GTPases Rag (RagA/RRAGA, RagB/RRAGB, RagC/RRAGC and/or RagD/RRAGD); promoting its recruitment to lysosomal membrane in the presence of nutrients (By similarity). Interacts with KARS1 (PubMed:14975237). Identified in a complex with HINT1 and CTNNB1 (By similarity). Interacts with VSX2 (PubMed:23028343). - Icariin-Enhanced Osteoclast-Derived Exosomes Promote Repair of Infected Bone Defects by Regulating Osteoclast and Osteoblast Communication.
Zhang, International journal of nanomedicine 2024 - “...The structure of icariin was obtained from PubChem, and the MITF protein from UniProt (ID Q08874). Icariin was the ligand and MITF was the receptor. AutodockTools were used for hydrogenation, charge checking, atomic type designation, and building docking grids for protein structures. A conversion from the...”
- Expression, Localization of SUMO-1, and Analyses of Potential SUMOylated Proteins in Bubalus bubalis Spermatozoa
Brohi, Frontiers in physiology 2017 - “...CT,N S 16 Fibrous sheath-interacting protein 2-like 16 SC K212 SC-Direct M. musculus [(P15806), Mitf (Q08874), Ncor1 (Q60974)]- Homo sapiens [ETV5 (P41161), MITF (075030), TFE3 (P19532)]-S.cerevisiae [SGS1 (P35187)] 17 Dynein heavy chain 2, axonemal 3 SI AA 4266-4269 SIM Type Epstein-Barr virus [(POC6Z8), BGLF4(P13288)] CT,N,EC Z...”
- Priorities and trends in the study of proteins in eye research, 1924-2014.
Semba, Proteomics. Clinical applications 2015 - “...1 isoform Q9ERD7 Tubb3 tubulin beta-3 chain 137 major constituent of microtubules -- 1 isoform Q08874 Mitf microphthalmia-associated transcription factor 132 transcription factor for genes that play essential roles in cell differentiation, proliferation, and survival defects in Mitf cause microphthalmia (mi) 9 isoforms P61372 Isl1 insulin...”
XP_005172942 transcription factor EB isoform X2 from Danio rerio
36% identity, 14% coverage
- Oligodendrocyte development and myelin sheath formation are regulated by the antagonistic interaction between the Rag-Ragulator complex and TFEB.
Bouchard, Glia 2024 - GeneRIF: Oligodendrocyte development and myelin sheath formation are regulated by the antagonistic interaction between the Rag-Ragulator complex and TFEB.
- The Lysosomal Transcription Factor TFEB Represses Myelination Downstream of the Rag-Ragulator Complex.
Meireles, Developmental cell 2018 - GeneRIF: Loss of Tfeb function is sufficient to restore myelination in RagA mutants, indicating that hyperactive Tfeb represses myelination. Conversely, tfeb(-/-) single mutants exhibit ectopic myelin, further indicating that Tfeb represses myelination during development.
- Embryonic expression of zebrafish MiT family genes tfe3b, tfeb, and tfec.
Lister, Developmental dynamics : an official publication of the American Association of Anatomists 2011 - GeneRIF: The zebrafish genome contain two mitf (mitfa and mitfb), two tfe3 (tfe3a and tfe3b), and single tfeb and tfec genes.
FGSG_09308 hypothetical protein from Fusarium graminearum PH-1
32% identity, 15% coverage
- Dynamic network inference and association computation discover gene modules regulating virulence, mycotoxin and sexual reproduction in Fusarium graminearum
Guo, BMC genomics 2020 - “...fungal mating by regulating sexual reproduction-related gene modules. In contrast, the two TFs FGSG_06356 and FGSG_09308 are negative regulators of sexual reproduction. For example, FGSG_06356, which is negatively associated with sexual development [ 23 ], was predicted as a top regulator for M30 and M42. Consistently,...”
- “...acts as a suppressor of M30 genes during sexual development (Additional file 8 ). Likewise, FGSG_09308 was predicted as a suppressor of M22 (Additional file 8 ), consistent with its previously reported phenotype. In addition, some regulators that had connections with many modules acted as hub...”
TFEB_MOUSE / Q9R210 Transcription factor EB from Mus musculus (Mouse) (see 9 papers)
NP_001155194 transcription factor EB isoform b from Mus musculus
36% identity, 16% coverage
- function: Transcription factor that acts as a master regulator of lysosomal biogenesis, autophagy, lysosomal exocytosis, lipid catabolism, energy metabolism and immune response (PubMed:16936731, PubMed:22343943, PubMed:27278822, PubMed:35662396). Specifically recognizes and binds E-box sequences (5'-CANNTG-3'); efficient DNA- binding requires dimerization with itself or with another MiT/TFE family member such as TFE3 or MITF (PubMed:16936731, PubMed:27278822). Involved in the cellular response to amino acid availability by acting downstream of MTOR: in the presence of nutrients, TFEB phosphorylation by MTOR promotes its cytosolic retention and subsequent inactivation (PubMed:35662396). Upon starvation or lysosomal stress, inhibition of MTOR induces TFEB dephosphorylation, resulting in nuclear localization and transcription factor activity (By similarity). Specifically recognizes and binds the CLEAR-box sequence (5'-GTCACGTGAC-3') present in the regulatory region of many lysosomal genes, leading to activate their expression, thereby playing a central role in expression of lysosomal genes (By similarity). Regulates lysosomal positioning in response to nutrient deprivation by promoting the expression of PIP4P1 (PubMed:29146937). Acts as a positive regulator of autophagy by promoting expression of genes involved in autophagy (PubMed:27278822). In association with TFE3, activates the expression of CD40L in T-cells, thereby playing a role in T-cell-dependent antibody responses in activated CD4(+) T-cells and thymus-dependent humoral immunity (PubMed:16936731). Specifically recognizes the gamma-E3 box, a subset of E-boxes, present in the heavy-chain immunoglobulin enhancer (By similarity). Plays a role in the signal transduction processes required for normal vascularization of the placenta (PubMed:9806910). Involved in the immune response to infection by the bacteria S.aureus, S.typhimurium or S.enterica (PubMed:24882217, PubMed:27184844, PubMed:35662396). Infection promotes itaconate production, leading to alkylation, resulting in nuclear localization and transcription factor activity (PubMed:35662396). Itaconate-mediated alkylation activates TFEB-dependent lysosomal biogenesis, facilitating the bacteria clearance during the antibacterial innate immune response (PubMed:35662396). In association with ACSS2, promotes the expression of genes involved in lysosome biogenesis and both autophagy upon glucose deprivation (By similarity).
subunit: Homodimer and heterodimer; with TFE3 or MITF (By similarity). Interacts (when phosphorylated by MTOR) with YWHAZ; promoting retention in the cytosol (By similarity). Interacts with Irgm1; promoting association between TFEB and PPP3CB and dephosphorylation (By similarity). Interacts with small GTPases Rag (RagA/RRAGA, RagB/RRAGB, RagC/RRAGC and/or RagD/RRAGD); promoting its recruitment to lysosomal membrane in the presence of nutrients (By similarity). Interacts with ACSS2 (By similarity).
disruption phenotype: Death between 9.5 and 10.5 days in embryonic development (PubMed:9806910). Embryos display severe defects in placental vascularization (PubMed:9806910). The embryonic vasculature forms normally but few vessels are seen entering the placenta and those that do enter fail to thrive and branch normally (PubMed:9806910). Conditional deletion in kidney does not lead to any abnormality in the kidney (PubMed:32612235). Mice lacking Tfeb and Flcn in the kidney do not show any abnormality in the kidney, suggesting that the kidney phenotype observed in Flcn knockout mice is due to constitutive activation of Tfeb (PubMed:32612235). - TFEB-vacuolar ATPase signaling regulates lysosomal function and microglial activation in tauopathy.
Wang, Nature neuroscience 2024 (PubMed)- GeneRIF: TFEB-vacuolar ATPase signaling regulates lysosomal function and microglial activation in tauopathy.
- Electroacupuncture ameliorates cognitive impairment in APP/PS1 mouse by modulating TFEB levels to relieve ALP dysfunction.
Chen, Brain research 2024 (PubMed)- GeneRIF: Electroacupuncture ameliorates cognitive impairment in APP/PS1 mouse by modulating TFEB levels to relieve ALP dysfunction.
- ABCG2 is an itaconate exporter that limits antibacterial innate immunity by alleviating TFEB-dependent lysosomal biogenesis.
Chen, Cell metabolism 2024 (PubMed)- GeneRIF: ABCG2 is an itaconate exporter that limits antibacterial innate immunity by alleviating TFEB-dependent lysosomal biogenesis.
- TFEB drives mTORC1 hyperactivation and kidney disease in Tuberous Sclerosis Complex.
Alesi, Nature communications 2024 - GeneRIF: TFEB drives mTORC1 hyperactivation and kidney disease in Tuberous Sclerosis Complex.
- Transcription factor EB modulates the homeostasis of reactive oxygen species in intestinal epithelial cells to alleviate inflammatory bowel disease.
Zhang, Biochimica et biophysica acta. Molecular basis of disease 2024 (PubMed)- GeneRIF: Transcription factor EB modulates the homeostasis of reactive oxygen species in intestinal epithelial cells to alleviate inflammatory bowel disease.
- Impaired TFEB-mediated autophagy-lysosome fusion promotes tubular cell cycle G2/M arrest and renal fibrosis by suppressing ATP6V0C expression and interacting with SNAREs.
Ren, International journal of biological sciences 2024 - GeneRIF: Impaired TFEB-mediated autophagy-lysosome fusion promotes tubular cell cycle G2/M arrest and renal fibrosis by suppressing ATP6V0C expression and interacting with SNAREs.
- TFEB regulates dendritic cell antigen presentation to modulate immune balance in asthma.
Xiang, Respiratory research 2024 - GeneRIF: TFEB regulates dendritic cell antigen presentation to modulate immune balance in asthma.
- A potential early-atheroprotective target: Irgm1 mediates lymphangiogenesis through LEC autophagy by Tfeb translocation.
Cai, Biochimica et biophysica acta. Molecular basis of disease 2024 (PubMed)- GeneRIF: A potential early-atheroprotective target: Irgm1 mediates lymphangiogenesis through LEC autophagy by Tfeb translocation.
- More
- Mechanism of conditional partner selectivity in MITF/TFE family transcription factors with a conserved coiled coil stammer motif
Pogenberg, Nucleic acids research 2020 - “...polypeptide chain in each of the two complexes was exchanged to the respective TFEB (UNIPROT: Q9R210) and MAX (UNIPROT: P28574) sequences. The resulting structural models of the MITF(wt)/TFEB and MITF()/MAX heterodimers were energy minimized performing 10 cycles of the GROMOS96 module in SwissPDBviewer 4.0 ( 34...”
- Quantitative phosphoproteomics reveals crosstalk between phosphorylation and O-GlcNAc in the DNA damage response pathway.
Zhong, Proteomics 2015 - “...Neuropilin-1 P97333 Y920 0.6 Ranbp10 Ran-binding protein 10 Q6VN19 S365 0.6 Tfeb Transcription factor EB Q9R210 S108 0.4 Ung Uracil-DNA glycosylase P97931 S43 0.4 Zcchc6 Terminal uridylyltransferase 7 E9PUA2 S645 0.5 Zdhhc5 Palmitoyltransferase ZDHHC5 Q8VDZ4 S621 0.3 Table 3 A list of kinases and phosphatases regulated...”
NP_001330723 basic helix-loop-helix (bHLH) DNA-binding superfamily protein from Arabidopsis thaliana
41% identity, 10% coverage
BIM1_ARATH / Q9LEZ3 Transcription factor BIM1; BES1-interacting Myc-like protein 1; Basic helix-loop-helix protein 46; AtbHLH46; bHLH 46; Transcription factor EN 126; bHLH transcription factor bHLH046 from Arabidopsis thaliana (Mouse-ear cress) (see 3 papers)
AT5G08130 BIM1; DNA binding / protein binding / transcription factor from Arabidopsis thaliana
41% identity, 10% coverage
- function: Positive brassinosteroid-signaling protein. Transcription factor that bind specifically to the DNA sequence 5'-CANNTG-3'(E box). Can bind individually to the promoter as a homodimer or synergistically as a heterodimer with BZR2/BES1. Does not itself activate transcription but enhances BZR2/BES1-mediated target gene activation.
subunit: Homodimer (Probable). Interacts with BZR2/BES1 through both C- terminal and bHLH domains. Also interacts with LHW. - The UV-B photoreceptor UVR8 interacts with the LOX1 enzyme to promote stomatal closure through the LOX-derived oxylipin pathway
Liu, The Plant cell 2025 - “...to the work described in this paper: BES1 Gramene: AT1G19350 BES1 Araport: AT1G19350 BIM1 Gramene: At5g08130 BIM1 Araport: At5g08130 MYB77 Gramene: AT3G50060 MYB77 Araport: AT3G50060 TCP4 Gramene: AT3G15030 TCP4 Araport: AT3G15030 WRKY36 Gramene: AT1G69810 WRKY36 Araport: AT1G69810 JAR1 Gramene: AT2G46370 JAR1 Araport: AT2G46370 AOC1 Gramene: AT3G25760...”
- Co-option and neofunctionalization of stomatal executors for defence against herbivores in Brassicales
Shirakawa, Nature plants 2025 - “...can be found in the GenBank/EMBL data libraries under the following accession numbers: BIM1 ( At5g08130 ), CCS52A1 ( At4g22910 ), CYCD5 ( At4g37630 ), CYCD7 ( At5g02110 ), EPF1 ( At2g20875 ), FAMA ( At3g24140 ), HIPP20 ( At1g71050 ), KAT1 ( At5g46240 ), MYB60...”
- The first intron and promoter of Arabidopsis DIACYLGLYCEROL ACYLTRANSFERASE 1 exert synergistic effects on pollen and embryo lipid accumulation
McGuire, The New phytologist 2025 - “...2016 ) AT2G20570 G2like Expression of the photosynthetic apparatus 9.20E05 Susila etal .( 2023 ) AT5G08130 BIM1 Involved in brassinosteroid signaling 9.42E05 Chandler etal .( 2009 ) AT1G09530 PIF3 Modulates photoreceptors phyA/B 9.47E05 Leivar etal .( 2020 ) AT5G14960 E2F/DP Cell proliferation 9.51E05 Sozzani etal .(...”
- Identification of quantitative trait loci (QTLs) regulating leaf SPAD value and trichome density in mungbean (Vigna radiata L.) using genotyping-by-sequencing (GBS) approach
Kumari, PeerJ 2024 - “...through gibberellin and cytokinin signaling. The homologous gene models in Arabidopsis , including AT4G25080, AT4G23940, AT5G08130 , and AT4G21440 genes, were identified as orthologs of VRADI07G29860, VRADI07G29450, VRADI07G17780 , and VRADI07G15650 , respectively ( Table S1 ). The digital gene expression analysis revealed that the genes...”
- “...(B) FtsHi1 (AT4G23940) is involved in chloroplast biogenesis and division (orthologous to VRADIO7G29450); (C) BIM1 (AT5G08130) encodes bHLH transcription factors and is involved in trichome development (orthologous to VRADIO7G29450); (D) ATM4 (AT4G21440) encodes MYB86 transcription factors regulating trichome branching and elongation (corresponds to VRADIO7G15650). Expression strength...”
- DArTseq-Based, High-Throughput Identification of Novel Molecular Markers for the Detection of Blackleg (Leptosphaeria Spp.) Resistance in Rapeseed
Starosta, International journal of molecular sciences 2024 - “...in plant immune response to pathogen infection ( Table 3 ). For example, A. thaliana At5g08130 (orthologue of BnaC02g41800D ) encodes a basic helixloophelix transcription factor that is involved in brassinosteroid signaling upon stress conditions. Brassinosteroids appear to modulate plant interactions with pathogens. Their effect is...”
- “...B. napus Gene A. thaliana Orthologue Protein Encoded by A. thaliana Orthologue Protein Function BnaC02g41800D At5g08130 BES1-INTERACTING MYC-LIKE1, BIM1 Transcription factor Brassinosteroid signaling BnaA07g17660 At3g58180 ARM repeat superfamily protein Deoxyhypusine monooxygenase activity BnaA07g18190 At4g37950 Rhamnogalacturonate lyase family protein Enables carbohydrate binding, enables lyase activity, enables rhamnogalacturonan...”
- Genome-Wide Identification and Role of the bHLH Gene Family in Dendrocalamus latiflorus Flowering Regulation
Zeng, International journal of molecular sciences 2024 - “...has been reported to be involved in jasmonic acid-mediated Arabidopsis flowering inhibition [ 35 ]. AT5G08130 ( BIM1 ) is a Brassinosteroid signal transduction element that synergistically regulates pollen fertility with SQUAMOSA PROMOTER BINDING PROTEIN-LIKE 8 ( SPL8 ) [ 36 ]. AT1G01260 ( JAM2 )...”
- lncRNAs involved in the Shade Avoidance Syndrome (SAS) in Arabidopsis thaliana
García-López, BMC genomics 2024 - “...by PIF3 and PIF4. This NAT overlaps the 3 end of BES1-INTERACTING MYC-LIKE1 (BIM1) ( AT5G08130 ). BIM1 is involved in brassinosteroid signaling and has been reported to positively regulate shade avoidance in A. thaliana. Interestingly, BIM1 is also upregulated in the same contrast as its...”
- PIF7-mediated epigenetic reprogramming promotes the transcriptional response to shade in Arabidopsis
Yang, The EMBO journal 2023 (secret) - More
NP_571922 melanocyte inducing transcription factor b from Danio rerio
36% identity, 14% coverage
NCU03077 hypothetical protein from Neurospora crassa OR74A
33% identity, 17% coverage
- Cold Shock as a Screen for Genes Involved in Cold Acclimatization in Neurospora crassa
Watters, G3 (Bethesda, Md.) 2018 - “...protein FlbC acon-4 Transc Factors NCU03073 11107 DNA polymerase epsilon, subunit D pole-4 Transc Factors NCU03077 11356 hypothetical protein Transc Factors NCU03096 12860 bromodomain associated domain-containing protein Morph/Hyph NCU03110 11024 hypothetical protein Transc Factors NCU03125 11279 NIMA-interacting protein TinC Morph/Hyph NCU03164 11225 two-component system response regulator...”
NP_001033808 mitf, isoform A from Drosophila melanogaster
36% identity, 9% coverage
8ia3E / Q15853 Crystal structure of human usf2 bhlhlz domain in complex with DNA (see paper)
36% identity, 53% coverage
SRBB_ASPFU / Q4W9W8 Transcription factor srbB; Sterol regulatory element-binding protein B from Aspergillus fumigatus (strain ATCC MYA-4609 / CBS 101355 / FGSC A1100 / Af293) (Neosartorya fumigata) (see paper)
AFUA_4G03460, Afu4g03460 HLH DNA binding domain protein, putative from Aspergillus fumigatus Af293
41% identity, 20% coverage
- function: Key transcription factors critical for hypoxia adaptation and virulence (PubMed:25375670). Plays a major role in regulation of heme biosynthesis and carbohydrate metabolism early in the response to hypoxia (PubMed:25375670).
disruption phenotype: Impairs growth in a hypoxic environment and subsequent virulence. - The sino-nasal warzone: transcriptomic and genomic studies on sino-nasal aspergillosis in dogs
Valdes, NPJ biofilms and microbiomes 2020 - “...the protein CatB (Afu3g0227) c.361A>T p.Ile121Phe 0 4 Changes in function of protein Hypoxia SrbB (Afu4g03460) c.397G>A p.Ala133Thr 0 24 changes in response to hypoxia Amino-acid metabolism CpcA (Afu4g12470) c.439T>C p.Ser147Pro 0 4 Amino-acid homeostasis changed Light sensing LreB (Afu4g12690) c.58C>T p.Gln20* 0 11 Light-induced morphogenesis...”
- The Transcription Factor ZafA Regulates the Homeostatic and Adaptive Response to Zinc Starvation in Aspergillus fumigatus
Vicentefranqueira, Genes 2018 - “...1.2 AFUA_3G14440 NZR - 3.5 0.5 1.3 0.1 AFUA_4G03410 NZR fhpA 3.1 0.3 1.4 0.2 AFUA_4G03460 IZR srbB 50.4 5.9 1.1 0.1 NZR AFUA_4G03930 DZR cysX 12786.9 1492.2 7751.9 938.0 Induction AFUA_4G06530 NZR metR 1.6 0.2 1.2 0.1 AFUA_4G09560 DZR zrfC 1270.1 108.0 5377.1 424.8 Induction...”
- An LaeA- and BrlA-Dependent Cellular Network Governs Tissue-Specific Secondary Metabolism in the Human Pathogen Aspergillus fumigatus
Lind, mSphere 2018 - “...stress ( Fig.1 ). Among these genes are the hypoxia regulators srbA (Afu2g01260) and srbB (Afu4g03460) ( TableS1 ). Both transcription factors contribute to virulence and are critical for regulation of iron uptake, heme biosynthesis, and ergosterol synthesis in A.fumigatus ( 33 ). Previous work has...”
- Global gene expression reveals stress-responsive genes in Aspergillus fumigatus mycelia
Takahashi, BMC genomics 2017 - “...challenges in A. fumigatus hyphae in terms of cell wall integrity. The expression of srbB (Afu4g03460) was 1/5-fold down-regulated at 30min in SS. srbB is involved in the regulation of ergosterol biosynthesis upon hypoxia [ 49 ], suggesting that srbB would respond to not only hypoxia...”
- Aspergillus fumigatus virulence through the lens of transcription factors
Bultman, Medical mycology 2017 - “...SrbA Afu3g08520 Afu2g02540 Afu4g09080 Afu7g02260 Afu2g01260 SrbB Afu4g03460 SreA StuA Afu5g11260 Afu2g07900 Yap1 ZafA Afu6g09930 Afu1g10080 Cell wall integrity...”
- Investigation of Aspergillus fumigatus biofilm formation by various "omics" approaches
Muszkieta, Frontiers in microbiology 2013 - “...AFUA_1G12840 Nitrite reductase 0.2 2.32 0.09 3.49 AFUA_5G12530 Conserved hypothetical protein 0.42 1.25 0.08 3.68 AFUA_4G03460 HLH DNA binding domain protein, putative 0.13 2.94 0.08 3.72 AFUA_3G11070 Pyruvate decarboxylase PdcA, putative 0.1 3.32 0.07 3.80 AFUA_3G10750 Acetate kinase, putative 0.34 1.56 0.06 4.04 AFUA_4G03410 Flavohemoprotein 0.07...”
- Evolutionary Analysis of Sequence Divergence and Diversity of Duplicate Genes in Aspergillus fumigatus
Yang, Evolutionary bioinformatics online 2012 - “...0.25 [1.14, 1.26] Afu1g10880 1.74 [1.83, 0.88] Afu8g05750 0.29 [1.00, 1.05] Afu3g01040 2.51 [2.14, 0.84] Afu4g03460 0.31 [1.81, 2.11] Afu1g17060 0.92 [1.56, 1.11] Afu6g03320 0.33 [1.42, 1.52] Afu1g12620 2.60 [2.07, 0.61] Afu6g11560 0.44 [1.82, 2.01] Afu2g15440 2.24 [2.18, 1.18] Afu2g04070 0.49 [1.02, 0.91] Afu6g03720 3.75 [1.81,...”
NP_571923 transcription factor E3a from Danio rerio
40% identity, 11% coverage
- Embryonic expression of zebrafish MiT family genes tfe3b, tfeb, and tfec
Lister, Developmental dynamics : an official publication of the American Association of Anatomists 2011 - “...NP_001026093; human TFEC, NP_036384; mouse Tfec, NP_112475; chicken Tfec, Q5XFQ6; zebrafish Mitfa, NP_570998; zebrafish Tfe3a, NP_571923; zebrafish Tfec, NP_001025276; yeast Rtg3p, NP_009447. The resulting msf file was used to build a phylogenetic tree with 1000 bootstraps using the protdist, neighbor, and consense programs of PHYLIP 3.69...”
Q15853 Upstream stimulatory factor 2 from Homo sapiens
NP_003358 upstream stimulatory factor 2 isoform 1 from Homo sapiens
37% identity, 19% coverage
- Comparative transcriptome of normal and cancer-associated fibroblasts.
Abikar, BMC cancer 2024 - “...Q5VWX1 protein ENSG00000228221 LINC00578 PUS10 Q3MIT2 protein ENSG00000228221 LINC00578 TRIM25 Q14258 protein ENSG00000228221 LINC00578 USF2 Q15853 protein ENSG00000228221 LINC00578 ZC3HAV1 Q7Z2W4 protein ENSG00000228221 LINC00578 ZMAT3 Q9HA38 protein ENSG00000228221 LINC00578 ZMAT3 Q9HA38 protein ENSG00000228221 LINC00578 SP1 P08047 protein ENSG00000228221 LINC00578 CPSF1 Q10570 protein ENSG00000228221 LINC00578 IGF2BP3 O00425...”
- “...Q9UBP6 protein NONHSAG006038 LINC01515 SCAF8 Q9UPN6 protein NONHSAG006038 LINC01515 TRIM25 Q14258 protein NONHSAG006038 LINC01515 USF2 Q15853 protein NONHSAG006038 LINC01515 ZMAT3 Q9HA38 protein NONHSAG006038 LINC01515 ZMAT3 Q9HA38 protein NONHSAG006038 LINC01515 SP1 P08047 protein NONHSAG006038 LINC01515 WDR4 P57081 protein NONHSAG006038 LINC01515 CPSF1 Q10570 protein NONHSAG006038 LINC01515 hnRNPD Q14103...”
- Effect of Xanthium Strumarium on HIV-1 5'-LTR Transcriptional Activity and Viral Reactivation in Latently Infected Cells.
Chen, Frontiers in pharmacology 2021 - “...Yes 8289399 259.8 3 347.3 4 198.2 2 265.3 3 170.5 2 155.0 2 USF2_HUMAN Q15853 USF2 No 155.6 2 201.0 3 140.7 2 0.0 0 0.0 0 0.0 0 XRCC5_HUMAN P13010 XRCC5 Yes 8240370 1,596.9 24 1897.1 28 1955.0 29 1,351.8 22 1,301.8 23 1,244.3...”
- Complementary quantitative proteomics reveals that transcription factor AP-4 mediates E-box-dependent complex formation for transcriptional repression of HDM2
Ku, Molecular & cellular proteomics : MCP 2009 - “...0.39 O15516 CLOCK 95244 64 1 2.04 N/A N/A N/A N/A N/A Q15853 USF2 36932 N/Ae N/A N/A 108 4 3.36 0.90 3.22 0.71 Q13469 NFATC2 100083 65 2 6.46 2.10 88 3 2.00...”
- Phylogenetic analysis of the human basic helix-loop-helix proteins
Ledent, Genome biology 2002 - “...SREBP1 NT_010657.3 17p11.2 Q12772 SREBP2 SREBP SREBP2 NT_011520.3 22q13 P22415 USF1 USF USF1 NT_026219.3 1q22-q23 Q15853 USF2 USF USF2 NT_011294.3 19q13 N009711 USF2b * USF USF2 NT_009711.6 12 Q9NP71 MLXa MLX MLX NT_023557.3 7q11 Q9HAP2 Mondoa MLX ? ? 12q21 Q9UH92 TF4a * TF4 TF4 NT_010771.3...”
- WDR3 promotes stem cell-like properties in prostate cancer by inhibiting USF2-mediated transcription of RASSF1A.
Liu, The journal of gene medicine 2023 (PubMed)- GeneRIF: WDR3 promotes stem cell-like properties in prostate cancer by inhibiting USF2-mediated transcription of RASSF1A.
- Long non-coding RNA X-Inactive Specific Transcript (XIST) interacting with USF2 promotes osteogenic differentiation of periodontal ligament stem cells through regulation of WDR72 transcription.
Xu, Journal of periodontal research 2023 (PubMed)- GeneRIF: Long non-coding RNA X-Inactive Specific Transcript (XIST) interacting with USF2 promotes osteogenic differentiation of periodontal ligament stem cells through regulation of WDR72 transcription.
- USF2 knockdown downregulates THBS1 to inhibit the TGF-β signaling pathway and reduce pyroptosis in sepsis-induced acute kidney injury.
Sun, Pharmacological research 2022 (PubMed)- GeneRIF: USF2 knockdown downregulates THBS1 to inhibit the TGF-beta signaling pathway and reduce pyroptosis in sepsis-induced acute kidney injury.
- Upstream stimulatory factor 2 inhibits erastin-induced ferroptosis in pancreatic cancer through transcriptional regulation of pyruvate kinase M2.
Chen, Biochemical pharmacology 2022 (PubMed)- GeneRIF: Upstream stimulatory factor 2 inhibits erastin-induced ferroptosis in pancreatic cancer through transcriptional regulation of pyruvate kinase M2.
- USF2-mediated upregulation of TXNRD1 contributes to hepatocellular carcinoma progression by activating Akt/mTOR signaling.
Huang, Cell death & disease 2022 - GeneRIF: USF2-mediated upregulation of TXNRD1 contributes to hepatocellular carcinoma progression by activating Akt/mTOR signaling.
- USF2 reduces BMP3 expression via transcriptional activation of miR-34a, thus promoting osteogenic differentiation of BMSCs.
Zeng, Journal of bone and mineral metabolism 2021 (PubMed)- GeneRIF: USF2 reduces BMP3 expression via transcriptional activation of miR-34a, thus promoting osteogenic differentiation of BMSCs.
- USF2 enhances the osteogenic differentiation of PDLCs by promoting ATF4 transcriptional activities.
Liu, Journal of periodontal research 2020 (PubMed)- GeneRIF: USF2 and ATF4 were upregulated in the osteogenic differentiation of periodontal ligament cells
- Irrelevance of USF2 rs916145 polymorphism with the risk of biliary atresia susceptibility in Southern Chinese children.
Chen, Bioscience reports 2020 - GeneRIF: Irrelevance of USF2 rs916145 polymorphism with the risk of biliary atresia susceptibility in Southern Chinese children.
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NP_001001162 upstream stimulatory factor 2 from Bos taurus
37% identity, 19% coverage
XP_019112415 transcription factor EB isoform X1 from Larimichthys crocea
31% identity, 13% coverage
USF2_MOUSE / Q64705 Upstream stimulatory factor 2; Major late transcription factor 2; Upstream transcription factor 2 from Mus musculus (Mouse) (see paper)
NP_112401 upstream stimulatory factor 2 from Rattus norvegicus
NP_035810 upstream stimulatory factor 2 isoform 1 from Mus musculus
37% identity, 19% coverage
- function: Transcription factor that binds to a symmetrical DNA sequence (E-boxes) (5'-CACGTG-3') that is found in a variety of viral and cellular promoters
subunit: Efficient DNA binding requires dimerization with another bHLH protein. Binds DNA as a homodimer or a heterodimer (USF1/USF2). Interacts with MAF. - Upstream stimulatory factor induces Nr5a1 and Shbg gene expression during the onset of rat Sertoli cell differentiation.
Wood, Biology of reproduction 2011 - GeneRIF: Upstream stimulatory factors (USF1 and USF2) induce Nr5a1 and Shbg gene expression during the onset of rat Sertoli cell differentiation.
- Glycated albumin upregulates upstream stimulatory factor 2 gene transcription in mesangial cells.
Li, American journal of physiology. Renal physiology 2010 - GeneRIF: Data suggest that glycated albumin upregulated USF2 gene transcription in mesangial cells through NF-kappaB-dependent transactivation of the USF2 promoter.
- High glucose levels upregulate upstream stimulatory factor 2 gene transcription in mesangial cells.
Shi, Journal of cellular biochemistry 2008 - GeneRIF: high glucose levels up-regulate USF2 gene transcription in mesangial cells through CREB-dependent transactivation of the USF2 promoter.
- Control of the calcitonin gene-related peptide enhancer by upstream stimulatory factor in trigeminal ganglion neurons.
Park, The Journal of biological chemistry 2008 (PubMed)- GeneRIF: USF1 and USF2 are important contributors to neuronal-specific and mitogen-activated protein kinase regulation of the CGRP gene in trigeminal ganglion neurons
- Overexpression of USF increases TGF-beta1 protein levels, but G1 phase arrest was not induced in FRTL-5 cells.
Kim, Journal of Korean medical science 2008 - GeneRIF: USF has a role in increasing TGF-beta1 protein levels, but not in indusing G1 phase arrest
- Glucose up-regulates thrombospondin 1 gene transcription and transforming growth factor-beta activity through antagonism of cGMP-dependent protein kinase repression via upstream stimulatory factor 2.
Wang, The Journal of biological chemistry 2004 (PubMed)- GeneRIF: USF2 has a role in upregulating thrombospondin 1 gene transcription and TGF-beta activity through antagonism of cGMP-dependent protein kinase repression
- Upstream stimulatory factors stimulate transcription through E-box motifs in the PF4 gene in megakaryocytes.
Okada, Blood 2004 (PubMed)- GeneRIF: USF1 and 2 transactivate rat and human PF4 promoters and may play an important role in megakaryocytic gene expression
- USF2 activates RhoB/ROCK pathway by transcriptional inhibition of miR-206 to promote pyroptosis in septic cardiomyocytes.
Dong, Molecular and cellular biochemistry 2024 (PubMed)- GeneRIF: USF2 activates RhoB/ROCK pathway by transcriptional inhibition of miR-206 to promote pyroptosis in septic cardiomyocytes.
- Usf2 Deficiency Promotes Autophagy to Alleviate Cerebral Ischemia-Reperfusion Injury Through Suppressing YTHDF1-m6A-Mediated Cdc25A Translation.
Liu, Molecular neurobiology 2024 (PubMed)- GeneRIF: Usf2 Deficiency Promotes Autophagy to Alleviate Cerebral Ischemia-Reperfusion Injury Through Suppressing YTHDF1-m6A-Mediated Cdc25A Translation.
- WDR3 promotes stem cell-like properties in prostate cancer by inhibiting USF2-mediated transcription of RASSF1A.
Liu, The journal of gene medicine 2023 (PubMed)- GeneRIF: WDR3 promotes stem cell-like properties in prostate cancer by inhibiting USF2-mediated transcription of RASSF1A.
- A natural variation-based screen in mouse cells reveals USF2 as a regulator of the DNA damage response and cellular senescence.
Kang, G3 (Bethesda, Md.) 2023 - GeneRIF: A natural variation-based screen in mouse cells reveals USF2 as a regulator of the DNA damage response and cellular senescence.
- Knockdown of USF2 inhibits pyroptosis of podocytes and attenuates kidney injury in lupus nephritis.
Xie, Journal of molecular histology 2023 (PubMed)- GeneRIF: Knockdown of USF2 inhibits pyroptosis of podocytes and attenuates kidney injury in lupus nephritis.
- Identification of KLF6/PSGs and NPY-Related USF2/CEACAM Transcriptional Regulatory Networks via Spinal Cord Bulk and Single-Cell RNA-Seq Analysis.
Liu, Disease markers 2021 - GeneRIF: Identification of KLF6/PSGs and NPY-Related USF2/CEACAM Transcriptional Regulatory Networks via Spinal Cord Bulk and Single-Cell RNA-Seq Analysis.
- Pdx1 and USF transcription factors co-ordinately regulate Alx3 gene expression in pancreatic β-cells.
Fernández-Pérez, The Biochemical journal 2014 (PubMed)- GeneRIF: Pdx1, USF1 and USF2 co-ordinately regulate Alx3 gene expression in pancreatic beta-cells.
- Differential configurations involving binding of USF transcription factors and Twist1 regulate Alx3 promoter activity in mesenchymal and pancreatic cells.
García-Sanz, The Biochemical journal 2013 (PubMed)- GeneRIF: USF1 and USF2 are important regulatory factors for Alx3 gene expression in different cell types
- More
- Unbiased proteomic analysis of proteins interacting with the HIV-1 5'LTR sequence: role of the transcription factor Meis.
Tacheny, Nucleic acids research 2012 - “...23 219.22 25 256.02 8 302.89 42 240.57 22 131.68 4 Upstream stimulatory factor 2 Q64705 Y 238 21 0 0 106.85 5 327.3 41 0 0 56.12 1 Upstream stimulatory factor 2 c (USF2c) Q6YI47 Y 265.45 19 117.88 12 0 0 347.74 30 0...”
LOC110114469 LOW QUALITY PROTEIN: transcription factor BIM2 from Dendrobium catenatum
42% identity, 15% coverage
Pc12g14660 uncharacterized protein from Penicillium rubens
42% identity, 22% coverage
- Dicer-Dependent Biogenesis of Small RNAs and Evidence for MicroRNA-Like RNAs in the Penicillin Producing Fungus Penicillium chrysogenum
Dahlmann, PloS one 2015 - “...the Dicer-dependent loci of the Copia13-like transposable element Pc17g00440 and the putative Helix-loop-helix DNA-binding protein Pc12g14660 are shown in Fig 4A . Besides Pc17g00440, multiple copies of the transposable element PCcopia13 (Pc17g00590, Pc21g00460, Pc22g26000, Pc24g01930, and Pc24g02680) and transposable element PCretro14 (Pc24g01940) were identified as Dicer-dependent...”
- “...were only significantly decreased on one strand. A representative example for this is the gene Pc12g14660, coding a putative DNA-binding protein, that show a significantly decreased sRNA level only on the antisense strand ( Fig 4A ). To illustrate sRNA distribution within Dicer-independent sRNA loci, putative...”
XP_975837 microphthalmia-associated transcription factor isoform X1 from Tribolium castaneum
33% identity, 13% coverage
USF1_HUMAN / P22415 Upstream stimulatory factor 1; Class B basic helix-loop-helix protein 11; bHLHb11; Major late transcription factor 1 from Homo sapiens (Human) (see 2 papers)
38% identity, 23% coverage
- function: Transcription factor that binds to a symmetrical DNA sequence (E-boxes) (5'-CACGTG-3') that is found in a variety of viral and cellular promoters
subunit: Efficient DNA binding requires dimerization with another bHLH protein. Binds DNA as a homodimer or a heterodimer (USF1/USF2). Interacts with varicella-zoster virus IE62 protein. - Effect of Xanthium Strumarium on HIV-1 5'-LTR Transcriptional Activity and Viral Reactivation in Latently Infected Cells.
Chen, Frontiers in pharmacology 2021 - “...15207707, 7836461 271.8 4 132.4 2 167.3 4 0.0 0 0.0 0 0.0 0 USF1_HUMAN P22415 USF1 Yes 8289399 259.8 3 347.3 4 198.2 2 265.3 3 170.5 2 155.0 2 USF2_HUMAN Q15853 USF2 No 155.6 2 201.0 3 140.7 2 0.0 0 0.0 0 0.0...”
- Interferon γ induced compositional changes in human bone marrow derived mesenchymal stem/stromal cells.
Guan, Clinical proteomics 2017 - “...59 4.9 IFN IFN 0.9 Q9BVA1 TUBB2B Tubulin beta-2B chain 0.8 1.5 IFN 65.6 IFN P22415 USF1 Upstream stimulatory factor 1 IFN IFN IFN O75317 USP12 Ubiquitin carboxyl-terminal hydrolase 12 IFN IFN 2.2 IFN Q702N8 XIRP1 Xin actin-binding repeat-containing protein 1 IFN IFN IFN IFN 7.3...”
- Unbiased proteomic analysis of proteins interacting with the HIV-1 5'LTR sequence: role of the transcription factor Meis
Tacheny, Nucleic acids research 2012 - “...1 36.4 1 86.18 2 504.6 68 593.75 83 808.04 36 Upstream stimulatory factor 1 P22415 Y ( 36 , 94 ) 279.62 23 219.22 25 256.02 8 302.89 42 240.57 22 131.68 4 Upstream stimulatory factor 2 Q64705 Y 238 21 0 0 106.85 5...”
- Lung cancer serum biomarker discovery using label-free liquid chromatography-tandem mass spectrometry.
Zeng, Journal of thoracic oncology : official publication of the International Association for the Study of Lung Cancer 2011 - “...0.4 Up Q7LFX5-2 Isoform 2 of N-acetylgalactosamine 4-sulfate 6-O-sulfotransferase 0.0051 2.6 4 1.5 1.8 Up P22415 Upstream stimulatory factor 1 0.0053 0.8 2.9 0.7 0.9 Up P02753 Retinol-binding protein 4 0.0053 91.6 129.5 97.5 103.8 Up Q9NYU1 UDP-glucose:glycoprotein glucosyltransferase 2 0.0055 0.7 1.2 0.3 0.2 Up...”
- Phylogenetic analysis of the human basic helix-loop-helix proteins
Ledent, Genome biology 2002 - “...TFEC NT_009714.3 12p11-q14 P36956 SREBP1 SREBP SREBP1 NT_010657.3 17p11.2 Q12772 SREBP2 SREBP SREBP2 NT_011520.3 22q13 P22415 USF1 USF USF1 NT_026219.3 1q22-q23 Q15853 USF2 USF USF2 NT_011294.3 19q13 N009711 USF2b * USF USF2 NT_009711.6 12 Q9NP71 MLXa MLX MLX NT_023557.3 7q11 Q9HAP2 Mondoa MLX ? ? 12q21...”
- “...gb|AAD20979.1 TFEC MITF N009714/O14948 gb|AAD24426.1 SREBP1 SREBP P36956 dbj|BAA74795.1 SREBP2 SREBP Q12772 gb|AAG01859.1 USF1 USF P22415 emb|CAA64627.1 USF2 USF Q15853/N026304 pir||A56522 Mlx MLX Q9NP71 gb|AAK20940.1 TF4 TF4 Q9UH92 gb|AAB51368.1 Bmal1 BMAL O00327 dbj|BAA76414.1 ARNT1 ARNT P27540 gb|AAA56717.1 ARNT2 ARNT Q9HBZ2 dbj|BAA09799.1 Clock Clock O15516 swissnew|O08785 NPAS2...”
- Single exchanges of amino acids in the basic region change the specificity of N-Myc
Feldmann, Nucleic acids research 1993 - “...LC (Accession number: P13526), USF (Accession number: P22415), GCN4 (Accession number: P03068, P03069), C/EBP (18), TAFI (48). After comparing the sequences,...”
XP_006250328 upstream stimulatory factor 1 isoform X1 from Rattus norvegicus
40% identity, 21% coverage
- Upstream stimulatory factor induces Nr5a1 and Shbg gene expression during the onset of rat Sertoli cell differentiation.
Wood, Biology of reproduction 2011 - GeneRIF: Upstream stimulatory factors (USF1 and USF2) induce Nr5a1 and Shbg gene expression during the onset of rat Sertoli cell differentiation.
- Hepatocyte growth factor family negatively regulates hepatic gluconeogenesis via induction of orphan nuclear receptor small heterodimer partner in primary hepatocytes.
Chanda, The Journal of biological chemistry 2009 - GeneRIF: a novel signaling pathway inhibits hepatic gluconeogenesis through HGF/AMPK/USF-1/SHP
- Control of the calcitonin gene-related peptide enhancer by upstream stimulatory factor in trigeminal ganglion neurons.
Park, The Journal of biological chemistry 2008 (PubMed)- GeneRIF: USF1 and USF2 are important contributors to neuronal-specific and mitogen-activated protein kinase regulation of the CGRP gene in trigeminal ganglion neurons
- Overexpression of USF increases TGF-beta1 protein levels, but G1 phase arrest was not induced in FRTL-5 cells.
Kim, Journal of Korean medical science 2008 - GeneRIF: USF has a role in increasing TGF-beta1 protein levels, but not in indusing G1 phase arrest
- UTP induces osteopontin expression through a coordinate action of NFkappaB, activator protein-1, and upstream stimulatory factor in arterial smooth muscle cells.
Renault, The Journal of biological chemistry 2005 (PubMed)- GeneRIF: osteopontin expression through a coordinate action of NFkappaB, activator protein-1, and upstream stimulatory factor in arterial smooth muscle cells
- Upstream stimulatory factors (USF-1/USF-2) regulate human cGMP-dependent protein kinase I gene expression in vascular smooth muscle cells.
Sellak, The Journal of biological chemistry 2005 (PubMed)- GeneRIF: Overexpression of upstream stimulatory factor 1 increases cyclic GMP-dependent protein kinase I promoter activity in human vascular smooth muscle cells.
- Upstream stimulatory factors stimulate transcription through E-box motifs in the PF4 gene in megakaryocytes.
Okada, Blood 2004 (PubMed)- GeneRIF: USF1 and 2 transactivate rat and human PF4 promoters and may play an important role in megakaryocytic gene expression
- Osteopontin transcription in aortic vascular smooth muscle cells is controlled by glucose-regulated upstream stimulatory factor and activator protein-1 activities.
Bidder, The Journal of biological chemistry 2002 (PubMed)- GeneRIF: USF regulates osteopontin gene transcription aortic vascular smooth muscle cells, entrained to changes in cellular glucose metabolism
NP_033506 upstream stimulatory factor 1 isoform 1 from Mus musculus
NP_001292606 upstream stimulatory factor 1 isoform 1 from Mus musculus
40% identity, 21% coverage
- Quantitative mass spectrometry of diabetic kidney tubules identifies GRAP as a novel regulator of TGF-beta signaling
Cummins, Biochimica et biophysica acta 2010 - “...NP_034626 Inhibitor of DNA binding 2 (ID2) Regulated by TGF1 [ 78 , 79 ] NP_033506 upstream stimulatory factor 1 (USF1) Regulated by TGF1, D- glucose , Insulin [ 80 , 81 ] NP_035790 Thioredoxin (TXN) Diabetes, oxidative stress response [ 82 ] * - indicates...”
- Hematopoietic upstream stimulating factor 1 deficiency is associated with increased atherosclerosis susceptibility in LDL receptor knockout mice.
Hoekstra, Scientific reports 2021 - GeneRIF: Hematopoietic upstream stimulating factor 1 deficiency is associated with increased atherosclerosis susceptibility in LDL receptor knockout mice.
- Transcription Factor USF1 Is Required for Maintenance of Germline Stem Cells in Male Mice.
Faisal, Endocrinology 2019 (PubMed)- GeneRIF: Data suggest that the that the upstream transcription factor 1 (USF1) is indispensable for the proper maintenance of mammalian spermatogenesis.
- Interleukin-like EMT inducer (ILEI) promotes melanoma invasiveness and is transcriptionally up-regulated by upstream stimulatory factor-1 (USF-1).
Noguchi, The Journal of biological chemistry 2018 - GeneRIF: ILEI contributes to melanoma cell invasiveness in vivo without affecting primary tumor growth and is transcriptionally up-regulated by USF-1.
- Suppression of metastasis through inhibition of chitinase 3-like 1 expression by miR-125a-3p-mediated up-regulation of USF1.
Kim, Theranostics 2018 - GeneRIF: The authors found that USF1 induced miR-125a-3p levels which suppressed Chi3L1 expression. Their results suggest that lung metastasis is suppressed by knock-down of Chi3L1 through miR-125a-3p-mediated up-regulation of USF1.
- USF1 deficiency alleviates inflammation, enhances cholesterol efflux and prevents cholesterol accumulation in macrophages.
Ruuth, Lipids in health and disease 2018 - GeneRIF: Our findings identify USF1 as a novel factor regulating HDL functionality, showing that USF1 inactivation boosts cholesterol efflux, reduces macrophage inflammation and attenuates macrophage cholesterol accumulation, linking improved macrophage cholesterol metabolism and inflammatory pathways to the antiatherogenic function of USF1 deficiency.
- Genome-wide analyses in neuronal cells reveal that upstream transcription factors regulate lysosomal gene expression.
Yamanaka, The FEBS journal 2016 (PubMed)- GeneRIF: USF1 exclusively bound to the CACGTG E-box motifs in the brain cortex neuron proximal promoter regions. Importantly, functional annotation of the USF1-binding targets revealed an enrichment of genes related to lysosomal functions.
- USF1 deficiency activates brown adipose tissue and improves cardiometabolic health.
Laurila, Science translational medicine 2016 (PubMed)- GeneRIF: Mice lacking Usf1 displayed increased BAT-facilitated, diet-induced thermogenesis with up-regulation of mitochondrial respiratory chain complexes, as well as increased BAT activity even at thermoneutrality and after BAT sympathectomy
- Vascular smooth muscle LRP6 limits arteriosclerotic calcification in diabetic LDLR-/- mice by restraining noncanonical Wnt signals.
Cheng, Circulation research 2015 - GeneRIF: USF1 but not USF2 supports OPN expression in LRP6-VKO vascular smooth muscle lineage, and immunoprecipitation confirmed increased USF1 association with OPN chromatin.
- More
Afu1g17060 HLH DNA binding domain protein, putative from Aspergillus fumigatus Af293
32% identity, 25% coverage
- Evolutionary Analysis of Sequence Divergence and Diversity of Duplicate Genes in Aspergillus fumigatus
Yang, Evolutionary bioinformatics online 2012 - “...1.74 [1.83, 0.88] Afu8g05750 0.29 [1.00, 1.05] Afu3g01040 2.51 [2.14, 0.84] Afu4g03460 0.31 [1.81, 2.11] Afu1g17060 0.92 [1.56, 1.11] Afu6g03320 0.33 [1.42, 1.52] Afu1g12620 2.60 [2.07, 0.61] Afu6g11560 0.44 [1.82, 2.01] Afu2g15440 2.24 [2.18, 1.18] Afu2g04070 0.49 [1.02, 0.91] Afu6g03720 3.75 [1.81, 0.91] Afu4g00860 0.50 [1.45,...”
BIM2_ARATH / Q9CAA4 Transcription factor BIM2; BES1-interacting Myc-like protein 2; Basic helix-loop-helix protein 102; AtbHLH102; bHLH 102; Transcription factor EN 125; bHLH transcription factor bHLH102 from Arabidopsis thaliana (Mouse-ear cress) (see 2 papers)
AT1G69010 BIM2 (BES1-interacting Myc-like protein 2); DNA binding / transcription factor from Arabidopsis thaliana
35% identity, 18% coverage
- function: Positive brassinosteroid-signaling protein
subunit: Homodimer (Probable). Interacts with the N-terminus of BZR2/BES1. - Strigolactone insensitivity affects the hormonal homeostasis in barley
Korek, Scientific reports 2025 - “...treatments stimulate cambium activity 78 . The fourth gene identified as a SL-related TF is AT1G69010 encoding BES1-INTERACTING MYC-LIKE PROTEIN 2 (BIM2), which together with its homologs BIM1 and BIM3, interacts with BES1 known to activate the expression of BR-induced genes 79 . It was proved...”
- Genetic regulation of self-organizing azimuthal canopy orientations and their impacts on light interception in maize
Zhou, The Plant cell 2024 - “...AT5G58140 PHYB Gramene: AT2G18790 PHYB Araport: AT2G18790 CPR5 Gramene: AT5G64930 CPR5 Araport: AT5G64930 BIM2 Gramene: AT1G69010 BIM2 Araport: AT1G69010 SPL8 Gramene: AT1G02065 SPL8 Araport: AT1G02065 References Ariyanayagam RP , Moore CL , Carangal VR . Selection for leaf angle in maize and its effect on grain...”
- Establishment of single-cell transcriptional states during seed germination
Liew, Nature plants 2024 - “...hormone responses were among the transcription factors shared between clusters (BES1-INTERACTING MYC-LIKE PROTEIN 2 (BIM2; AT1G69010), BES1/BZR1 HOMOLOG 3 (BEH3; AT4G18890) and BES1/BZR1 HOMOLOG 4 (BEH4; AT1G78700)), which is notable because brassinosteroids play an important role in cell division and growth 47 . Three transcription factors...”
- Multi-omics insights into the positive role of strigolactone perception in barley drought response
Daszkowska-Golec, BMC plant biology 2023 - “...AT1G80840 WRKY40 Response to ABA; response to water deprivation HORVU5Hr1G070800 (MLOC_62335) 1,42 0,00 87 9 AT1G69010 BIM2 Positive brassinosteroid-signaling protein HORVU7Hr1G026940 (MLOC_81350) 1,08 0,00 85 11 AT2G23340 DEAR3 Involved in ethylene-activated signaling pathway HORVU2Hr1G021080 (MLOC_51930) 1,02 0,00 84 7 AT3G62420 BZIP53 Transcription activator that binds ABA-responsive...”
- Cold-responsive transcription factors in Arabidopsis and rice: A regulatory network analysis using array data and gene co-expression network
Edrisi, PloS one 2023 - “...59/ UNE12 AT4G02590 Os02g02480 TCP1 16 TCP21 AT5G08330 Os07g05720 17 bHLH79 AT5G62610 Os02g47660 18 bHLH102/BIM2 AT1G69010 Os12g41650 19 bHLH105/ ILR3 AT5G54680 Os08g04390 20 bHLH116/ICE1 AT3G26744 Os01g50940 21 bHLH128 AT1G05805 Os07g39940 22 bHLH129 AT2G43140 Os03g10770 23 bHLH137 AT5G50915 Os08g42470 24 bHLH148 AT3G06590 Os03g53020 Nuclear transcription factor Y...”
- Basic Helix-Loop-Helix (bHLH) Transcription Factors Regulate a Wide Range of Functions in Arabidopsis
Hao, International journal of molecular sciences 2021 - “...bHLH46 BIM1 BES1-INTERACTING MYC-LIKE 1, involved in BRs signaling Va [ 111 , 112 ] At1g69010 bHLH102 BIM2 Involved in brassinosteroid signaling and modulated SAS Va [ 111 , 112 ] At5g38860 bHLH141 BIM3 Involved in brassinosteroid signaling and modulated SAS Va [ 111 , 112...”
- EAT-UpTF: Enrichment Analysis Tool for Upstream Transcription Factors of a Group of Plant Genes
Shim, Frontiers in genetics 2020 - “...659 17.5 2,485 27,206 9.1 8.58 10 12 3.00 10 9 bZIP44 BASIC LEUCINE-ZIPPER 44 AT1G69010 328 659 49.8 10,132 27,206 37.2 2.20 10 11 7.69 10 9 BIM2 BES1-INTERACTING MYC-LIKE PROTEIN 2 AT2G36270 165 659 25.0 4,188 27,206 15.4 5.50 10 11 1.92 10 8...”
- Systematic analysis of the basic/helix-loop-helix (bHLH) transcription factor family in pummelo (Citrus grandis) and identification of the key members involved in the response to iron deficiency
Zhang, BMC genomics 2020 - “...Cg9g028240 AT5G53210 SPCH 61.29 26 CgbHLH29.6 633 Cg8g019200 AT2G28160 FIT 49.54 90 CgbHLH102.1 1029 Cg7g015780 AT1G69010 BIM2 60.19 27 CgbHLH29.7 237 Cg8g019020 AT2G28160 FIT 49.25 91 CgbHLH102.2 1026 Cg6g020770 AT1G69010 BIM2 44.37 28 CgbHLH29.8 660 Cg8g019140 AT2G28160 FIT 48.15 92 CgbHLH104 648 Cg9g007860 AT4G14410 64.62 29...”
- More
TYE7_CANAL / Q5AL36 Carbohydrate metabolism regulator TYE7 from Candida albicans (strain SC5314 / ATCC MYA-2876) (Yeast) (see 8 papers)
TYE7 transcription factor with bHLH from Candida albicans (see paper)
XP_722152 Tye7p from Candida albicans SC5314
33% identity, 29% coverage
- function: Key transcriptional regulator of carbohydrate metabolism. Binds the promoter sequences of the glycolytic genes at the CANNTG motif and activates their expression during growth on either fermentable or non-fermentable carbon sources as well as under hypoxic growth conditions. Complete glycolytic activation by GAL4 and TYE7 is required for full virulence. Involved in biofilm formation and negatively regulates hyphal formation under hypoxia. Also controls the expression of the copper transport protein CTR1.
subunit: Efficient DNA binding requires dimerization with another bHLH protein - CharProtDB CGD description: Transcription factor with bHLH (basic region, helix-loop-helix) motif involved in control of glycolysis; hyphally regulated via Cph1p, Cyr1p; flucytosine, Hog1p induced; amphotericin B, caspofungin repressed
- Contribution of the glycolytic flux and hypoxia adaptation to efficient biofilm formation by Candida albicans.
Bonhomme, Molecular microbiology 2011 (PubMed)- GeneRIF: TYE7 was identified as being required for the cohesiveness of biofilms. a hypoxic environment is generated within C. albicans biofilms and continued biofilm development requires a Tye7p-dependent upregulation of glycolytic genes.
- Sterol regulatory element binding proteins in fungi: hypoxic transcription factors linked to pathogenesis
Bien, Eukaryotic cell 2010 - “...(NP_587813) Scp1 (XP_569410) (XP_746533) Tye7 (XP_722152); (XP_716760) Hms1p (NP_014675); Tye7p (NP_014989) (XP_001522006) NCBI reference sequence accession...”
CCM_04014 membrane-tethered transcription factor (predicted) from Cordyceps militaris CM01
32% identity, 12% coverage
- Improving Hypoxia Adaption Causes Distinct Effects on Growth and Bioactive Compounds Synthesis in an Entomopathogenic Fungus Cordyceps militaris
Wang, Frontiers in microbiology 2021 - “...cns1 : CCM_04436, cns2 : CCM_04437) and predicted sterol regulatory element-binding proteins ( sre1n : CCM_04014, scp1 : CCM_03924, ins1 : CCM_07354, ofd1 : CCM_07850) were quantified using qRT-PCR. The sre1 orthologs were discarded in the genome assembly process and were re-corrected at Scaffold 00003: 3173021-3176010....”
- “...2017 ). Through bioinformatics analysis, we found SREBP orthologs in C. militaris , including Sre1N (CCM_04014), Scp1 (CCM_03924), Ins1 (CCM_07354), and Ofd1 (CCM_07850). However, Sre1 ortholog was discarded in the genome assembly process because of the internal gap in sequence (see text footnote 1). Consequently, the...”
- Genome-Wide Analysis of the Zn(II)₂Cys₆ Zinc Cluster-Encoding Gene Family in Tolypocladiumguangdongense and Its Light-Induced Expression
Zhang, Genes 2019 - “...as target of blue-light receptor gene CmWC-1 , as well as other C6-type TFs (CCM_01467, CCM_04014, CCM_02196, CCM_07587, CCM_04849, and CCM_05610) [ 58 ]. Hence, we investigated the expression of C6-type genes under different light conditions. We found that 54 C6-type genes were light-regulated in T....”
Q6MYV5 Possible bhlh transcription factor from Aspergillus fumigatus
32% identity, 17% coverage
- Phylogenetic analysis and classification of the fungal bHLH domain
Sailsbery, Molecular biology and evolution 2012 - “...CPF1 TYE7, SAH-2, HMS1, SRE1, SRE2, CPH2, CAP1P Q6MYV5 PHO4, NUC-1, PalcA ESC1, devR YAS2 INO4, YAS1 INO2 Biological Function Interorganelle communication...”
- “...in Aspergillus fumigatus that the group F5 protein Q6MYV5 is essential in nitrate assimilation and quinate utilization. Thus, bHLH proteins belonging to...”
XP_012252483 microphthalmia-associated transcription factor isoform X1 from Athalia rosae
32% identity, 10% coverage
An08g04000 uncharacterized protein from Aspergillus niger
33% identity, 18% coverage
- Identification and Characterization of a Novel Basic Helix-Loop-Helix Transcription Factor of Phospholipid Synthesis Regulation in Aspergillus niger
Dong, Frontiers in microbiology 2019 - “...Assay cDNA of nine bHLH genes ( An0204350 , An03g04180 , An03g05170 , An08g01380 , An08g04000 , An09g06630 , An14g02540 , An15g03490 , and An01g13950 ) and opi1(An15g02370) were amplified. The PCR products were then constructed into the linearized plasmid pGADT7 AD (Takara, Otsu, Japan), which...”
- “...ino2 does not bind in vitro with the eight other bHLH TFs previously discovered ( An08g04000 , An15g03490 , An01g13950 , An09g06630 , An03g04180 , An08g01380 , An14g02540 , and An03g05170 ; Pel et al., 2007 ) by itself in A. niger. In S. cerevisiae ,...”
XP_011304746 transcription factor EC isoform X2 from Fopius arisanus
33% identity, 12% coverage
For advice on how to use these tools together, see
Interactive tools for functional annotation of bacterial genomes.
The PaperBLAST database links 798,070 different protein sequences to 1,261,478 scientific articles. Searches against EuropePMC were last performed on May 12 2025.
PaperBLAST builds a database of protein sequences that are linked
to scientific articles. These links come from automated text searches
against the articles in EuropePMC
and from manually-curated information from GeneRIF, UniProtKB/Swiss-Prot,
BRENDA,
CAZy (as made available by dbCAN),
BioLiP,
CharProtDB,
MetaCyc,
EcoCyc,
TCDB,
REBASE,
the Fitness Browser,
and a subset of the European Nucleotide Archive with the /experiment tag.
Given this database and a protein sequence query,
PaperBLAST uses protein-protein BLAST
to find similar sequences with E < 0.001.
To build the database, we query EuropePMC with locus tags, with RefSeq protein
identifiers, and with UniProt
accessions. We obtain the locus tags from RefSeq or from MicrobesOnline. We use
queries of the form "locus_tag AND genus_name" to try to ensure that
the paper is actually discussing that gene. Because EuropePMC indexes
most recent biomedical papers, even if they are not open access, some
of the links may be to papers that you cannot read or that our
computers cannot read. We query each of these identifiers that
appears in the open access part of EuropePMC, as well as every locus
tag that appears in the 500 most-referenced genomes, so that a gene
may appear in the PaperBLAST results even though none of the papers
that mention it are open access. We also incorporate text-mined links
from EuropePMC that link open access articles to UniProt or RefSeq
identifiers. (This yields some additional links because EuropePMC
uses different heuristics for their text mining than we do.)
For every article that mentions a locus tag, a RefSeq protein
identifier, or a UniProt accession, we try to select one or two
snippets of text that refer to the protein. If we cannot get access to
the full text, we try to select a snippet from the abstract, but
unfortunately, unique identifiers such as locus tags are rarely
provided in abstracts.
PaperBLAST also incorporates manually-curated protein functions:
- Proteins from NCBI's RefSeq are included if a
GeneRIF
entry links the gene to an article in
PubMed®.
GeneRIF also provides a short summary of the article's claim about the
protein, which is shown instead of a snippet.
- Proteins from Swiss-Prot (the curated part of UniProt)
are included if the curators
identified experimental evidence for the protein's function (evidence
code ECO:0000269). For these proteins, the fields of the Swiss-Prot entry that
describe the protein's function are shown (with bold headings).
- Proteins from BRENDA,
a curated database of enzymes, are included if they are linked to a paper in PubMed
and their full sequence is known.
- Every protein from the non-redundant subset of
BioLiP,
a database
of ligand-binding sites and catalytic residues in protein structures, is included. Since BioLiP itself
does not include descriptions of the proteins, those are taken from the
Protein Data Bank.
Descriptions from PDB rely on the original submitter of the
structure and cannot be updated by others, so they may be less reliable.
(For SitesBLAST and Sites on a Tree, we use a larger subset of BioLiP so that every
ligand is represented among a group of structures with similar sequences, but for
PaperBLAST, we use the non-redundant set provided by BioLiP.)
- Every protein from EcoCyc, a curated
database of the proteins in Escherichia coli K-12, is included, regardless
of whether they are characterized or not.
- Proteins from the MetaCyc metabolic pathway database
are included if they are linked to a paper in PubMed and their full sequence is known.
- Proteins from the Transport Classification Database (TCDB)
are included if they have known substrate(s), have reference(s),
and are not described as uncharacterized or putative.
(Some of the references are not visible on the PaperBLAST web site.)
- Every protein from CharProtDB,
a database of experimentally characterized protein annotations, is included.
- Proteins from the CAZy database of carbohydrate-active enzymes
are included if they are associated with an Enzyme Classification number.
Even though CAZy does not provide links from individual protein sequences to papers,
these should all be experimentally-characterized proteins.
- Proteins from the REBASE database
of restriction enzymes are included if they have known specificity.
- Every protein with an evidence-based reannotation (based on mutant phenotypes)
in the Fitness Browser is included.
- Sequence-specific transcription factors (including sigma factors and DNA-binding response regulators)
with experimentally-determined DNA binding sites from the
PRODORIC database of gene regulation in prokaryotes.
- Putative transcription factors from RegPrecise
that have manually-curated predictions for their binding sites. These predictions are based on
conserved putative regulatory sites across genomes that contain similar transcription factors,
so PaperBLAST clusters the TFs at 70% identity and retains just one member of each cluster.
- Coding sequence (CDS) features from the
European Nucleotide Archive (ENA)
are included if the /experiment tag is set (implying that there is experimental evidence for the annotation),
the nucleotide entry links to paper(s) in PubMed,
and the nucleotide entry is from the STD data class
(implying that these are targeted annotated sequences, not from shotgun sequencing).
Also, to filter out genes whose transcription or translation was detected, but whose function
was not studied, nucleotide entries or papers with more than 25 such proteins are excluded.
Descriptions from ENA rely on the original submitter of the
sequence and cannot be updated by others, so they may be less reliable.
Except for GeneRIF and ENA,
the curated entries include a short curated
description of the protein's function.
For entries from BioLiP, the protein's function may not be known beyond binding to the ligand.
Many of these entries also link to articles in PubMed.
For more information see the
PaperBLAST paper (mSystems 2017)
or the code.
You can download PaperBLAST's database here.
Changes to PaperBLAST since the paper was written:
- November 2023: incorporated PRODORIC and RegPrecise. Many PRODORIC entries were not linked to a protein sequence (no UniProt identifier), so we added this information.
- February 2023: BioLiP changed their download format. PaperBLAST now includes their non-redundant subset. SitesBLAST and Sites on a Tree use a larger non-redundant subset that ensures that every ligand is represented within each cluster. This should ensure that every binding site is represented.
- June 2022: incorporated some coding sequences from ENA with the /experiment tag.
- March 2022: incorporated BioLiP.
- April 2020: incorporated TCDB.
- April 2019: EuropePMC now returns table entries in their search results. This has expanded PaperBLAST's database, but most of the new entries are of low relevance, and the resulting snippets are often just lists of locus tags with annotations.
- February 2018: the alignment page reports the conservation of the hit's functional sites (if available from from Swiss-Prot or UniProt)
- January 2018: incorporated BRENDA.
- December 2017: incorporated MetaCyc, CharProtDB, CAZy, REBASE, and the reannotations from the Fitness Browser.
- September 2017: EuropePMC no longer returns some table entries in their search results. This has shrunk PaperBLAST's database, but has also reduced the number of low-relevance hits.
Many of these changes are described in Interactive tools for functional annotation of bacterial genomes.
PaperBLAST cannot provide snippets for many of the papers that are
published in non-open-access journals. This limitation applies even if
the paper is marked as "free" on the publisher's web site and is
available in PubmedCentral or EuropePMC. If a journal that you publish
in is marked as "secret," please consider publishing elsewhere.
Many important articles are missing from PaperBLAST, either because
the article's full text is not in EuropePMC (as for many older
articles), or because the paper does not mention a protein identifier such as a locus tag, or because of PaperBLAST's heuristics. If you notice an
article that characterizes a protein's function but is missing from
PaperBLAST, please notify the curators at UniProt
or add an entry to GeneRIF.
Entries in either of these databases will eventually be incorporated
into PaperBLAST. Note that to add an entry to UniProt, you will need
to find the UniProt identifier for the protein. If the protein is not
already in UniProt, you can ask them to create an entry. To add an
entry to GeneRIF, you will need an NCBI Gene identifier, but
unfortunately many prokaryotic proteins in RefSeq do not have
corresponding Gene identifers.
References
PaperBLAST: Text-mining papers for information about homologs.
M. N. Price and A. P. Arkin (2017). mSystems, 10.1128/mSystems.00039-17.
Europe PMC in 2017.
M. Levchenko et al (2017). Nucleic Acids Research, 10.1093/nar/gkx1005.
Gene indexing: characterization and analysis of NLM's GeneRIFs.
J. A. Mitchell et al (2003). AMIA Annu Symp Proc 2003:460-464.
UniProt: the universal protein knowledgebase.
The UniProt Consortium (2016). Nucleic Acids Research, 10.1093/nar/gkw1099.
BRENDA in 2017: new perspectives and new tools in BRENDA.
S. Placzek et al (2017). Nucleic Acids Research, 10.1093/nar/gkw952.
The EcoCyc database: reflecting new knowledge about Escherichia coli K-12.
I. M. Keeseler et al (2016). Nucleic Acids Research, 10.1093/nar/gkw1003.
The MetaCyc database of metabolic pathways and enzymes.
R. Caspi et al (2018). Nucleic Acids Research, 10.1093/nar/gkx935.
CharProtDB: a database of experimentally characterized protein annotations.
R. Madupu et al (2012). Nucleic Acids Research, 10.1093/nar/gkr1133.
The carbohydrate-active enzymes database (CAZy) in 2013.
V. Lombard et al (2014). Nucleic Acids Research, 10.1093/nar/gkt1178.
The Transporter Classification Database (TCDB): recent advances
M. H. Saier, Jr. et al (2016). Nucleic Acids Research, 10.1093/nar/gkv1103.
REBASE - a database for DNA restriction and modification: enzymes, genes and genomes.
R. J. Roberts et al (2015). Nucleic Acids Research, 10.1093/nar/gku1046.
Deep annotation of protein function across diverse bacteria from mutant phenotypes.
M. N. Price et al (2016). bioRxiv, 10.1101/072470.
by Morgan Price,
Arkin group
Lawrence Berkeley National Laboratory