FAM40A

Protein FAM40A is a protein that is located on chromosome 1 in humans and is encoded by the FAM40A gene.^[5][6][7]

STRIP1
Identifiers
Aliases	STRIP1, FAM40A, FAR11A, striatin interacting protein 1
External IDs	OMIM: 617918; MGI: 2443884; HomoloGene: 35064; GeneCards: STRIP1; OMA:STRIP1 - orthologs
Gene location (Human) Chr. Chromosome 1 (human)[1] Band 1p13.3 Start 110,031,577 bp[1] End 110,074,641 bp[1]
Gene location (Mouse) Chr. Chromosome 3 (mouse)[2] Band 3|3 F2.3 Start 107,519,848 bp[2] End 107,539,010 bp[2]
RNA expression pattern Bgee Human Mouse (ortholog) Top expressed in mucosa of ileum pancreatic ductal cell right hemisphere of cerebellum granulocyte ganglionic eminence body of uterus bone marrow cells right frontal lobe ventricular zone tibialis anterior muscle Top expressed in otic vesicle hand lens ganglionic eminence neural tube ventricular zone granulocyte dentate gyrus of hippocampal formation granule cell primary visual cortex Rostral migratory stream More reference expression data BioGPS n/a
Gene ontology Molecular function protein binding molecular function protein kinase binding Cellular component extracellular exosome nucleus cytoplasm cytosol Biological process regulation of cell morphogenesis cortical actin cytoskeleton organization Sources:Amigo / QuickGO
Orthologs Species Human Mouse Entrez 85369 229707 Ensembl ENSG00000143093 ENSMUSG00000014601 UniProt Q5VSL9 Q8C079 RefSeq (mRNA) NM_001270768 NM_033088 NM_153563 RefSeq (protein) NP_001257697 NP_149079 NP_705791 Location (UCSC) Chr 1: 110.03 – 110.07 Mb Chr 3: 107.52 – 107.54 Mb PubMed search [3] [4]
Wikidata
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Characteristics and secondary structure

FAM40A has an isoelectric point of 5.92 and a molecular weight of 95,575 daltons.^[8] It is predicted to have three transmembrane domains, making it a transmembrane protein.^[9] FAM40A does not contain a signal peptide and is also predicted to bind to DNA, possibly making it a membrane protein in the nuclear membrane.^[10][11]

Prediction of the orientation of the transmembrane domains of FAM40A

The secondary structure of FAM40A is predicted to contain twenty-six alpha helices and two beta sheets.^[12] The 5' untranslated region of FAM40A is predicted to contain one stem-loop and the 3' untranslated region is predicted to contain eight stem-loop structures.^[13] Two miRNAs are predicted to bind to two of the stem-loop structures present in the 3' UTR region.^[14]

Homology

FAM40A has no paralogs. However, it does have orthologs stretching all the way back to yeast. It has been suggested that FAM40A is a homolog to the yeast gene FAR11, which is involved in the recovery from cell cycle arrest.^[15][16]

The following table represents a small selection of orthologs found using searches in BLAST^[17] and BLAT.^[18] This is by no means a comprehensive list, however it does show the vast diversity of species where FAM40A orthologs are found.

Scientific Name	Common Name	Accession number (from NCBI [16])	Sequence Length	Percent Identity	Percent Similarity
Homo sapiens	Human	NP_149079	837	-	-
Pongo abelii	Sumatran orangutan	XP_002810520	837	99.6%	100%
Sus scrofa	Pig	XP_003125904	837	98.8%	100%
Equus caballus	Horse	XP_001493762	837	98.8%	100%
Mus musculus	Mouse	NP_705791	837	98%	100%
Rattus norvegicus	Rat	XP_001068288	837	97.8%	100%
Monodelphis domestica	Gray short-tailed opossum	XP_001372588	843	95.4%	100%
Danio rerio	Zebra fish	XP_001918929	813	83.4%	98%
Canis lupus familiaris	Dog	From BLAT [18]	812	96.1%	100%
Ailuropoda melanoleuca	Panda	From BLAT [18]	823	$96.2	100%
Oryzias latipes	Medaka	From BLAT [18]	751	78.4%	96%
Xenopus (Silurana) tropicalis	Western clawed frog	NP_001027483	819	86.4%	96%
Aedes aegypti	Yellow-fever mosquito	XP_001658692	829	51.2%	97%
Tribolium castaneum	Red flour beetle	XP_001815164	817	57.4%	97%
Hydra magnipapillata	Hydra hydrozoan	XP_002164866	830	44%	97%
Ciona intestinalis	Sea squirt	XP_002130558	867	46.4%	97%
Pediculus humanus corporis	Human lice	XP_002425964	808	52.7%	97%
Nasonia vitripennis	Jewel wasp	XP_001603859	802	52.7%	97%
Drosophila erecta	Fruit fly	XP_001971743	882	45.2%	97%
Saccharomyces cerevisiae	Bakers yeast	NP_014272	953	18.9%	97%

Expression

FAM40A is expressed in high levels during the blastocyst, eight-cell stage, and fetal stages of development.^[19] FAM40A has also been shown to be expressed in high levels in the mammary glands, brain, thymus, mouth and the testes.^[20] It has also been shown to be expressed in high levels in mammary gland tumors, leukemia cells, and germ cell tumors.^[20]

Predicted FAM40A expression in different tissues of the body

Transcription Regulation

FAM40A is predicted to have a promoter region 789 base pairs upstream of the start of transcription.^[21] The SOX transcription factors are predicted to bind to the promoter region of the FAM40A gene, possibly indicating a role in sex determination.^[21]

Interactions

FAM40A has been shown to interact with RP6-213H19.1,^[22] STRN,^[22] PDCD10,^[22] TRAF3IP3,^[22] STRN3,^[22] PPP2R1A,^[22] MOBKL3,^[22] CTTNBP2NL,^[22] STK24^[22][23] and PPP2CA.^[22]