Family Search for PF10300 (Iml2-TPR_39)
April 2024: See Interactive Tools for Functional Annotation of Bacterial Genomes for advice on using these tools.
Running HMMer for PF10300
PF10300 hits 19 sequences in PaperBLAST's database above the trusted cutoff. Showing all hits. Or show only hits to curated sequences or try another family.
D3ZC96 Tetratricopeptide repeat protein 39B from Rattus norvegicus
Aligns to 75:533 / 617 (74.4%), covers 99.8% of PF10300, 615.3 bits
TT39B_MOUSE / Q8BYY4 Tetratricopeptide repeat protein 39B; TPR repeat protein 39B from Mus musculus (Mouse) (see paper)
Aligns to 75:533 / 617 (74.4%), covers 99.8% of PF10300, 614.5 bits
- function: Regulates high density lipoprotein (HDL) cholesterol metabolism by promoting the ubiquitination and degradation of the oxysterols receptors LXR (NR1H2 and NR1H3).
disruption phenotype: Chow-fed deficient mice display increased HDL- cholesterol level, accompanied by increased ABCA1 and MYLIP expression, increased oxysterols receptors LXR (NR1H3 and NR1H2) protein level without change in NR1H2/3 mRNA levels. Many NR1H2/3 targets are up- regulated, including ABCG5/8, SCD1, ELOVL5, INSIG2 and LPCAT3. Deficiency of TTC39B reduced processing of SREBP1 a pivotal regulator of lipogenesis. When fed with a high-fat/high-cholesterol/bile-salt diet during 20 weeks, used as a model of steatohepatitis resembling human non-alcoholic steatohepatitis, mice show increased HDL cholesterol and APOA1 levels, reduced VLDL (very low density lipoprotein), and reduced mortality compared with wild-type. The livers of deficient mice shown diminished hepatic triglyceride and cholesteryl ester accumulation, fewer inflammatory foci consisting of neutrophils and lymphocytes, less hepatocellular ballooning degeneration and less hepatocyte proliferation compared to control. Knockout mice lacking both TTC39B and LDLR, fed a Western diet for 20 weeks, exhibit a reduction in LDL-cholesterol, but plasma triglyceride levels are not different. Atherosclerotic lesion area of the aorta are reduced compared to LDLR single knockout mice.
NP_001161813 tetratricopeptide repeat protein 39B isoform 4 from Homo sapiens
Aligns to 13:463 / 547 (82.4%), covers 98.1% of PF10300, 598.4 bits
- Lipids, obesity and gallbladder disease in women: insights from genetic studies using the cardiovascular gene-centric 50K SNP array.
Rodriguez, European journal of human genetics : EJHG 2016 - GeneRIF: Two new polymorphisms associated with gall bladder disease and obesity in women have been identified, GCKR rs1260326, and TTC39B rs686030.
- Common variants upstream of KDR encoding VEGFR2 and in TTC39B associate with endometriosis.
Steinthorsdottir, Nature communications 2016 - GeneRIF: association of rs519664[T] in TTC39B on 9p22 with endometriosis, is reported.
- Genetic loci associated with lipid concentrations and cardiovascular risk factors in the Korean population.
Park, Journal of medical genetics 2011 (PubMed)- GeneRIF: Observational study of gene-disease association. (HuGE Navigator)
- Evaluating the discriminative power of multi-trait genetic risk scores for type 2 diabetes in a northern Swedish population.
Fontaine-Bisson, Diabetologia 2010 - GeneRIF: Observational study of gene-disease association and gene-gene interaction. (HuGE Navigator)
- Biological, clinical and population relevance of 95 loci for blood lipids.
Teslovich, Nature 2010 - GeneRIF: Observational study and genome-wide association study of gene-disease association. (HuGE Navigator)
- Common variants at 30 loci contribute to polygenic dyslipidemia.
Kathiresan, Nature genetics 2009 - GeneRIF: Observational study and genome-wide association study of gene-disease association. (HuGE Navigator)
- Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score.
Rose, Molecular medicine (Cambridge, Mass.) - GeneRIF: Clinical trial of gene-disease association and gene-environment interaction. (HuGE Navigator)
D4A7N7 Tetratricopeptide repeat domain 39D from Rattus norvegicus
Aligns to 69:522 / 604 (75.2%), covers 99.8% of PF10300, 556.0 bits
AFUA_1G10360, Afu1g10360 conserved hypothetical protein from Aspergillus fumigatus Af293
Aligns to 35:601 / 725 (78.2%), covers 100.0% of PF10300, 518.5 bits
- Post-translational modifications drive secondary metabolite biosynthesis in Aspergillus: a review
Yang, Environmental microbiology 2022 - “...these two MAPK mutants suggested proteins involved in secondary metabolism (e.g. AFUA_1G10320, AFUA_1G10330, AFUA_1G10350 and AFUA_1G10360 in the nidulaninlike BGC, and AFUA_8G00410 in the fumagillin/pseurotin BGC) were also impacted. Another global phosphoproteomic analysis was also studied in A. flavus , of which 283 phosphoproteins were identified...”
- Regulation of Secondary Metabolism by the Velvet Complex Is Temperature-Responsive in Aspergillus
Lind, G3 (Bethesda, Md.) 2016 - “..., Afu1g10295 , Afu1g10310 , Afu1g10320 , Afu1g10330 , Afu1g10340 , Afu1g10350 , Afu1g10355 , Afu1g10360 , Afu1g10370 , Afu1g10380 Inglis et al. (2013) Cluster 3 Not known Afu1g17200 , Afu1g17210 , Afu1g17220 , Afu1g17230 , Afu1g17240 Inglis et al. (2013) Cluster 4 Not known Afu1g17710...”
XP_022187702 tetratricopeptide repeat protein 39B from Nilaparvata lugens
Aligns to 34:488 / 589 (77.2%), covers 99.8% of PF10300, 477.8 bits
YKR18_YEAST / P36114 IML2-like protein YKR018C from Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) (see 2 papers)
YKR018C Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm and nucleus from Saccharomyces cerevisiae
Aligns to 36:629 / 725 (81.9%), covers 99.8% of PF10300, 469.1 bits
SPBC83.16c conserved fungal protein from Schizosaccharomyces pombe
Aligns to 16:474 / 563 (81.5%), covers 99.8% of PF10300, 461.6 bits
- Adding phosphorylation events to the core oscillator driving the cell cycle of fission yeast
Humaidan, PloS one 2018 - “...Plo1, Klp5, Rum1, Ark1, Ste11 Rst2 Fnp1, Ste11 Hsr1 SPAC26H5.07C, SPCC594.01, Bud32, Vtc4, SPBC725.03, SPCC613.03, SPBC83.16C, Urg1, Dsc5, Crs103 Scr1 Gld1 Cdc10 Ctp1, Cig2, Cdc18, Nrm1, Mik1, Cdt1 1.3 Gene expression data According to [ 2 ] [ 15 ], around 2000 genes out of the...”
- Genetic regulation of mitotic competence in G0 quiescent cells
Sajiki, Science advances 2018 - “...1.4 2C 1C/2C vac7 VAC7 108.3 71.7 0.0 0.0 0.0 0.0 8.5 2.1 2C 2C SPBC83.16c TTC39B YKR018C 103.3 90.0 7.5 0.0 0.0 0.0 4.9 3.6 2C 1C Metabolism (antioxidant) sod2 SOD2 SOD2 76.7 48.3 3.7 0.0 0.0 0.0 5.1 2.0 2C 1C spe1 ODCC1 SPE1...”
- “...( vps3 , vps26 , and vps35 ). The genes aut12 , vac7 , and SPBC83.16c may function in maintenance of vacuole structure during the G 0 phase, since deletions showed abnormal vacuolar sizes and shapes in cells under N (fig. S1). In these strains with...”
SPAC11E3.14 No description from Schizosaccharomyces pombe
Aligns to 38:500 / 588 (78.7%), covers 99.8% of PF10300, 459.2 bits
IML2_YEAST / P47031 Inclusion body clearance protein IML2; Increased minichromosome loss protein 2 from Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) (see 3 papers)
YJL082W Iml2p from Saccharomyces cerevisiae
Aligns to 38:634 / 731 (81.7%), covers 99.8% of PF10300, 453.0 bits
- function: Inclusion body (IB) resident protein that interacts strongly with lipid droplet (LD) proteins. Involved in LD-mediated IB clearing after protein folding stress, probably by enabling access to the IBs of an LD-stored soluble sterol derivative that acts as a chaperone in inclusion clearing.
subunit: Interacts with lipid droplet proteins PET10 and PDR16. - A simplified and easy-to-use HIP HOP assay provides insights into chalcone antifungal mechanisms of action
Prescott, FEBS letters 2022 - “...verrucarin A, borrelidin YDL075w Y23772 Translation IML2 HIP Anisomycin, bortezomib, cycloheximide, verrucarin A, trichothecene, AN2690 YJL082w Y21341 Translation RPS24A HOP Bortezomib, trichothecene YER074w Y30214 Translation NPL3 HOP Bortezomib, cycloheximide, verrucarin A, trichothecene, AN2690 YDR432w Y34268 Translation RPS10B HOP Verrucarin A, trichothecene YMR230w Y30816 Translation THR4 HOP...”
- Identification of Genes in Saccharomyces cerevisiae that Are Haploinsufficient for Overcoming Amino Acid Starvation
Bae, G3 (Bethesda, Md.) 2017 - “...required for the assembly of actin and tubulins in vivo M + , C, i YJL082W IML2 Protein required for clearance of inclusion bodies; localizes to the inclusion bodies formed under protein mis-folding stress M + , C, v YBL075C SSA3 ATPase involved in protein folding...”
- Different Toxicity Mechanisms for Citrinin and Ochratoxin A Revealed by Transcriptomic Analysis in Yeast
Vanacloig-Pedros, Toxins 2016 - “...10 5 Haze-protective mannoprotein YMR318C ADH6 5.8 7.64 10 3 NADPH-dependent medium chain alcohol dehydrogenase YJL082W IML2 5.8 4.56 10 4 Protein of unknown function YKL051W SFK1 5.6 6.62 10 6 Plasma membrane protein that may act to generate normal levels of PI4P YER185W PUG1 5.6...”
- Dissecting a complex chemical stress: chemogenomic profiling of plant hydrolysates
Skerker, Molecular systems biology 2013 - “...YML122C Dubious Other YDR008C Dubious Other YDL050C Dubious Other YDR125C ECM18 Other YGL168W HUR1 Other YJL082W IML2 Other YOL081W IRA2 Other YOR322C LDB19 Other YDL051W LHP1 Other YDR378C LSM6 Other YNL147W LSM7 Other YBR255W MTC4 Other YDL040C NAT1 Other YOR209C NPT1 Other YDR360W OPI7 Other YDL173W...”
- New insight into the role of the Cdc34 ubiquitin-conjugating enzyme in cell cycle regulation via Ace2 and Sic1
Cocklin, Genetics 2011 - “...YOR134W YFL053W YPR158W YPR015C YGL037C YLL026W YNL077W YJL082W YBR214W YPL247C YNL007C YOR267C YFL040W YOL032W YBR101C YER035W YHL021C YGR088W YER028C YNR014W...”
- Mg2+ deprivation elicits rapid Ca2+ uptake and activates Ca2+/calcineurin signaling in Saccharomyces cerevisiae
Wiesenberger, Eukaryotic cell 2007 - “...YOR230W YKL126W YDL124W YHL021C YKR049C YMR251W-A YGR268C YJL082W YML128C YLR350W YPR154W YGL053W YGR213C YDL023C YJL048C YAR027W YBR148W YBR287W YLR327C...”
- Comparison of protein coding gene contents of the fungal phyla Pezizomycotina and Saccharomycotina
Arvas, BMC genomics 2007 - “...of the ORFs found in the clusters with this enriched category is not known. However, YJL082w (IML2) found in the clusters has been shown to have a physical interaction with YLR014c (PPR1) [ 30 ], a positive transcriptional regulator of the pyrimidine biosynthesis pathway [ 31...”
- Proteomic analysis of the yeast mitochondrial outer membrane reveals accumulation of a subclass of preproteins
Zahedi, Molecular biology of the cell 2006 - “...YOR020c YOR211c 53 28 22 24.5 11.4 101.5 5.0 9.0 8.1 YJL082w 16 82.5 6.2 54.0 YHR083w 13 37.4 6.7 53.5 YBL057c 43 23.1 5.3 52.0 YAL048c 12 75.1 5.7 51.0 YPR098c...”
- More
Q6FTE0 IML2-like protein CAGL0G03245g from Candida glabrata (strain ATCC 2001 / BCRC 20586 / JCM 3761 / NBRC 0622 / NRRL Y-65 / CBS 138)
Aligns to 33:652 / 751 (82.6%), covers 99.6% of PF10300, 449.2 bits
XP_006538304 tetratricopeptide repeat protein 39B isoform X4 from Mus musculus
Aligns to 8:343 / 427 (78.7%), covers 67.2% of PF10300, 418.1 bits
XP_030106474 tetratricopeptide repeat protein 39C isoform X1 from Mus musculus
Aligns to 1:437 / 522 (83.7%), covers 93.8% of PF10300, 413.5 bits
Q0VGK2 Tetratricopeptide repeat protein 39C from Rattus norvegicus
Aligns to 1:437 / 522 (83.7%), covers 93.8% of PF10300, 412.8 bits
NP_694943 tetratricopeptide repeat protein 39C isoform 2 from Homo sapiens
Aligns to 1:437 / 522 (83.7%), covers 93.8% of PF10300, 409.2 bits
NP_001018404 tetratricopeptide repeat protein 39C from Danio rerio
Aligns to 26:494 / 579 (81.0%), covers 99.8% of PF10300, 396.3 bits
AO090038000392 No description from Aspergillus oryzae RIB40
Aligns to 1:291 / 291 (100.0%), covers 49.0% of PF10300, 257.1 bits
M7X0Q4 Mitochondrial outer membrane protein IML2 from Rhodotorula toruloides (strain NP11)
Aligns to 15:564 / 772 (71.2%), covers 88.7% of PF10300, 208.4 bits
A0A2T0A031 Mitochondrial outer membrane protein IML2 from Rhodotorula toruloides
Aligns to 15:563 / 773 (71.0%), covers 88.7% of PF10300, 207.9 bits
Or search for genetic data about PF10300 in the Fitness Browser
by Morgan Price,
Arkin group
Lawrence Berkeley National Laboratory