Biology:TMEM125
File:Ideogram human chromosome 1.svg Transmembrane protein 125 is a protein that, in humans, is encoded by the TMEM125 gene.[1] It has 4 transmembrane domains and is expressed in the lungs, thyroid, pancreas, intestines, spinal cord, and brain. Though its function is currently poorly understood by the scientific community, research indicates it may be involved in colorectal and lung cancer networks.[2] Additionally, it was identified as a cell adhesion molecule in oligodendrocytes, suggesting it may play a role in neuron myelination.[3]
Gene
The TMEM125 gene has no aliases, except for its encoded protein’s name. Its cytogenic location is at 1p34.2 on the plus strand and it spans from bases 43,272,723 to 43,273,379. TMEM125 comprises four exons.[1]
Gene-level regulation
Five TMEM125 promoters were identified by Genomatix Gene2Promoter. The primary promoter (NM_001320244) is 1881 bp in length.[4] It consists of binding sites for fork head domain factors and zinc finger transcription factors.
Transcript
TMEM125 has two variant transcripts that differ only in the 5' untranslated region (UTR), but both encode the same protein. mRNA variant 1 represents the longer of the two variants and is 1898 base pairs (bp) in length; variant 2 is 1797 bp long.[1]
Transcript-level regulation
TMEM125 microarray-assessed expression patterns in normal human tissue demonstrate the primary tissues of expression are the pancreas, lungs, salivary glands, trachea, brain, prostate, spinal cord, and thyroid.[5] Additionally, RNA-seq data illustrates transcript expression in the following additional tissue: colon, small intestines, prostate, and stomach.[6]
Protein
Predicted structure
TMEM125 comprises 219 amino acids with four transmembrane domains.[1] Its predicted isoelectric point is 8.32 and predicted molecular weight is 22.1 kDa.[7] It is primarily leucine-rich, and secondarily alanine- and glycine-rich; TMEM125 is also arginine- and lysine-deficient. It has two core repeat blocks, VALL and TTSS, which both appear twice within the protein.[8]
The secondary structure of TMEM125 is predicted to consist of α-helices and small segments of β-sheets.[9][10][11][12]
The tertiary structure and topology of TMEM125 was predicted and visualized through Phyre2.[13]
Post-translational modifications and localization
TMEM125 has 1 predicted phosphorylation site (CK2 Phos), 5 predicted N-myristoylation sites (N-myr), 2 predicted palmitoylation sites (Pal), and 1 predicted amidation site (Amid).[14] It also contains the domain of unknown function 66 (DUF66).
TMEM125 is predicted to be subcellularly localized in the plasma membrane. It is secondarily predicted to be localized in the endoplasmic reticulum.[15]
Protein interactions
There were no scientifically-verified protein interactions identified for TMEM125. String Protein Interaction predicted 10 functional protein partners for TMEM125, but all were determined through textmining.[16]
Homology/evolution
TMEM125 is conserved in species as distantly related to humans as cartilaginous fish, that’s most recent common ancestor to humans existed 465 million years ago.[17] TMEM125 is highly conserved in primates, mammals, birds, reptiles, bony fish, and cartilaginous fish, but is not observed in invertebrates.[18]
TMEM125 does not have any paralogs.[1]
Clinical significance
In a topological transcriptome analysis, researchers profiled important proteins of the non-small cell lung cancer regulatory network and determined that TMEM125 exhibited different topological characteristics across cancerous and normal conditions, suggesting its criticality in lung cancer networks.[2]
This is consistent with post-translational modification analysis; TMEM125 phosphorylation suggests it may be involved in a signal transduction pathway or as a receptor protein. Additionally, its myristoylation sites suggests its involvement in signal transduction, apoptosis, and alternative extracellular protein export.[19]
TMEM125 was identified as a tetraspanin cell adhesion molecule enriched in oligodendrocytes, suggesting it may play a role in myelination. Additionally, its expression was not observed in differentiating oligodendrocytes in vitro, but was detected in oligodendrocytes from treated rat brains, which suggests its expression is regulated by the presence of axons.[3]
References
- ↑ 1.0 1.1 1.2 1.3 1.4 "TMEM125 transmembrane protein 125 [Homo sapiens (human) – Gene – NCBI"]. https://www.ncbi.nlm.nih.gov/gene/128218.
- ↑ 2.0 2.1 Izadi, F. "Identification of key regulators in non-small cell lung cancer based on network topology and modularity analysis". Arvand Journal of Health & Medical Sciences 1 (3). http://arvandj.abadanums.ac.ir/article_43205_6f6da2468363a93f3141a03f9e75646e.pdf.
- ↑ 3.0 3.1 Golan, Neev (July 2008). "Identification of Tmem10/Opalin as an oligodendrocyte enriched gene using expression profiling combined with genetic cell ablation". Glia 56 (11): 1176–1186. doi:10.1002/glia.20688. PMID 18571792.
- ↑ Genomatix Gene2Promoter for TMEM125 https://www.genomatix.de/?s=0a5ff9bd8789702a10b4944121907066
- ↑ NCBI GEO Profiles for TMEM125 Various Normal Tissue https://www.ncbi.nlm.nih.gov/geoprofiles/49001241
- ↑ NCBI Gene TMEM125 Expression Report, updated 3 Feb. 2019 https://www.ncbi.nlm.nih.gov/gene/128218/?report=expression
- ↑ ExPASy Compute pI/Mw tool https://web.expasy.org/compute_pi/
- ↑ EMBL-EBI SAPS Homo sapiens matrix for TMEM125 https://www.ebi.ac.uk/Tools/seqstats/saps/
- ↑ CFSSP http://www.biogem.org/tool/chou-fasman/
- ↑ PRABI Lyon-Gerland SOPMA https://npsa-prabi.ibcp.fr/cgi-bin/npsa_automat.pl?page=/NPSA/npsa_sopma.html
- ↑ Jpred4 http://www.compbio.dundee.ac.uk/jpred/
- ↑ Ali2D https://omictools.com/ali2d-tool
- ↑ Phyre2 http://www.sbg.bio.ic.ac.uk/phyre2/html/page.cgi?id=index
- ↑ SIB MyHits MotifScan https://myhits.isb-sib.ch/cgi-bin/motif_scan
- ↑ PSort II for TMEM125 https://www.psort.org/
- ↑ Elixir STRING https://string-db.org/
- ↑ TimeTree: The Timescale of Life search for Divergence Time for a Pair of Taxa http://www.timetree.org/
- ↑ NCBI BLASTp search for TMEM125 orthologs https://blast.ncbi.nlm.nih.gov/Blast.cgi?PAGE=Proteins
- ↑ Maurer-Stroh, S.; Eisenhaber, B.; Eisenhaber, F. (2002). "N-terminal N-myristoylation of proteins: refinement of the sequence motif and its taxon-specific differences". Journal of Molecular Biology 317 (4): 523–540. doi:10.1006/jmbi.2002.5425. PMID 11955007. https://www.sciencedirect.com/science/article/pii/S0022283602954252.
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