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SGMS1 sphingomyelin synthase 1 [ Homo sapiens (human) ]

Gene ID: 259230, updated on 27-Nov-2024

Summary

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Official Symbol
SGMS1provided by HGNC
Official Full Name
sphingomyelin synthase 1provided by HGNC
Primary source
HGNC:HGNC:29799
See related
Ensembl:ENSG00000198964 MIM:611573; AllianceGenome:HGNC:29799
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
MOB; MOB1; SMS1; TMEM23; hmob33
Summary
The protein encoded by this gene is predicted to be a five-pass transmembrane protein. This gene may be predominately expressed in brain. [provided by RefSeq, Jul 2008]
Expression
Ubiquitous expression in thyroid (RPKM 9.1), lung (RPKM 8.8) and 25 other tissues See more
Orthologs
mouse all
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Genomic context

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See SGMS1 in Genome Data Viewer
Location:
10q11.23
Exon count:
20
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 10 NC_000010.11 (50305600..50625184, complement)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 10 NC_060934.1 (51153786..51472591, complement)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 10 NC_000010.10 (52065360..52383716, complement)

Chromosome 10 - NC_000010.11Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 2366 Neighboring gene N-acylsphingosine amidohydrolase 2 Neighboring gene Sharpr-MPRA regulatory region 2427 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 3356 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 3357 Neighboring gene dynein cytoplasmic 1 intermediate chain 2 pseudogene 1 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:52072847-52073346 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 3358 Neighboring gene ReSE screen-validated silencer GRCh37_chr10:52115322-52115522 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 3359 Neighboring gene NANOG hESC enhancer GRCh37_chr10:52150757-52151283 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr10:52166919-52167712 Neighboring gene NANOG-H3K4me1 hESC enhancer GRCh37_chr10:52169740-52170240 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 2367 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 3360 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 3361 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 3362 Neighboring gene Sharpr-MPRA regulatory region 10759 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 3363 Neighboring gene Sharpr-MPRA regulatory region 12597 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 3364 Neighboring gene uncharacterized LOC124902424 Neighboring gene RNA, U7 small nuclear 107 pseudogene Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 2368 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 3365 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 3366 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 2369 Neighboring gene H3K27ac hESC enhancer GRCh37_chr10:52383585-52384113 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 2371 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 3368 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 3367 Neighboring gene SGMS1 antisense RNA 1 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 3369 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 3370 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 3371 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 3372 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 3373 Neighboring gene SHQ1, H/ACA ribonucleoprotein assembly factor pseudogene 1 Neighboring gene BEN domain containing 3 pseudogene 1

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

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Related articles in PubMed

  1. Sphingomyelin synthase 1 activity is regulated by the BCR-ABL oncogene. Burns TA, et al. J Lipid Res, 2013 Mar. PMID 23160178, Free PMC Article
  2. Sphingomyelin synthase in rat liver nuclear membrane and chromatin. Albi E, et al. FEBS Lett, 1999 Oct 29. PMID 10544266
  3. In vitro and in silico analysis of the predicted human MOB gene encoding a phylogenetically conserved transmembrane protein. Vladychenskaya IP, et al. Biomol Eng, 2002 Feb. PMID 11841947
  4. Human gene MOB: structure specification and aspects of transcriptional activity. Vladychenskaya IP, et al. Gene, 2004 Sep 1. PMID 15315829
  5. Sphingomyelin synthase 1 suppresses ceramide production and apoptosis post-photodamage. Separovic D, et al. Biochem Biophys Res Commun, 2007 Jun 22. PMID 17467659, Free PMC Article

See all (66) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Human sphingomyelin synthase 1 generates diacylglycerol in the presence and absence of ceramide via multiple enzymatic activities.
    Title: Human sphingomyelin synthase 1 generates diacylglycerol in the presence and absence of ceramide via multiple enzymatic activities.
  2. Diacylglycerol kinase zeta interacts with sphingomyelin synthase 1 and sphingomyelin synthase-related protein via different regions.
    Title: Diacylglycerol kinase ζ interacts with sphingomyelin synthase 1 and sphingomyelin synthase-related protein via different regions.
  3. Sphingomyelin Biosynthesis Is Essential for Phagocytic Signaling during Mycobacterium tuberculosis Host Cell Entry.
    Title: Sphingomyelin Biosynthesis Is Essential for Phagocytic Signaling during Mycobacterium tuberculosis Host Cell Entry.
  4. Overriding sorafenib resistance via blocking lipid metabolism and Ras by sphingomyelin synthase 1 inhibition in hepatocellular carcinoma.
    Title: Overriding sorafenib resistance via blocking lipid metabolism and Ras by sphingomyelin synthase 1 inhibition in hepatocellular carcinoma.
  5. Regulation of human sphingomyelin synthase 1 translation through its 5'-untranslated region.
    Title: Regulation of human sphingomyelin synthase 1 translation through its 5'-untranslated region.
  6. Diacylglycerol kinase delta and sphingomyelin synthase-related protein functionally interact via their sterile alpha motif domains.
    Title: Diacylglycerol kinase δ and sphingomyelin synthase-related protein functionally interact via their sterile α motif domains.
  7. Chlamydia trachomatis-infected human cells convert ceramide to sphingomyelin without sphingomyelin synthases 1 and 2.
    Title: Chlamydia trachomatis-infected human cells convert ceramide to sphingomyelin without sphingomyelin synthases 1 and 2.
  8. Differential lung tissue gene expression in males and females: implications for the susceptibility to develop COPD.
    Title: Differential lung tissue gene expression in males and females: implications for the susceptibility to develop COPD.
  9. optively transferred wide-type B cells partially recovered B-cell activation and autoantibody production in SMS1 deficient bm12-induced lupus mice. Moreover, the SMS1 mRNA level in B cells of SLE patients was increased and positively correlated with the serum anti-dsDNA level, IgG and globulin titers.
    Title: Sphingomyelin synthase 1 enhances BCR signaling to promote lupus-like autoimmune response.
  10. SMS1 could inhibit EMT and the migration and invasion of MDAMB231 cells via TGFbeta/Smad signaling pathway.
    Title: Sphingomyelin synthase 1 regulates the epithelial‑to‑mesenchymal transition mediated by the TGF‑β/Smad pathway in MDA‑MB‑231 cells.
Submit: New GeneRIF Correction See all GeneRIFs (46)

Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

EBI GWAS Catalog

Description
Genome wide association study (GWAS) of Chagas cardiomyopathy in Trypanosoma cruzi seropositive subjects.
EBI GWAS Catalog
Genome-wide association study of d-amphetamine response in healthy volunteers identifies putative associations, including cadherin 13 (CDH13).
EBI GWAS Catalog

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Pathways from PubChem

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Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Clone Names

  • MGC17342

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables ceramide cholinephosphotransferase activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables ceramide cholinephosphotransferase activity IDA
Inferred from Direct Assay
more info
 PubMed 
enables ceramide phosphoethanolamine synthase activity IDA
Inferred from Direct Assay
more info
 PubMed 
enables kinase activity IEA
Inferred from Electronic Annotation
more info
  
enables sphingomyelin synthase activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables sphingomyelin synthase activity IDA
Inferred from Direct Assay
more info
 PubMed 
enables sphingomyelin synthase activity IMP
Inferred from Mutant Phenotype
more info
 PubMed 
enables sphingomyelin synthase activity TAS
Traceable Author Statement
more info
  
Process Evidence Code Pubs
involved_in apoptotic process IEA
Inferred from Electronic Annotation
more info
  
involved_in ceramide biosynthetic process IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within ceramide biosynthetic process IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in regulation of intrinsic apoptotic signaling pathway TAS
Traceable Author Statement
more info
 PubMed 
involved_in sphingolipid biosynthetic process TAS
Traceable Author Statement
more info
  
involved_in sphingomyelin biosynthetic process IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in sphingomyelin biosynthetic process IDA
Inferred from Direct Assay
more info
 PubMed 
Component Evidence Code Pubs
is_active_in Golgi membrane IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in Golgi membrane IDA
Inferred from Direct Assay
more info
 PubMed 
located_in Golgi membrane TAS
Traceable Author Statement
more info
  
located_in Golgi trans cisterna IDA
Inferred from Direct Assay
more info
 PubMed 
located_in endoplasmic reticulum TAS
Traceable Author Statement
more info
 PubMed 
is_active_in endoplasmic reticulum membrane IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in membrane HDA PubMed 
located_in nucleus TAS
Traceable Author Statement
more info
 PubMed 
is_active_in plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in plasma membrane TAS
Traceable Author Statement
more info
 PubMed 

General protein information

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Preferred Names
phosphatidylcholine:ceramide cholinephosphotransferase 1
Names
medulla oblongata-derived protein
protein Mob
transmembrane protein 23
NP_671512.1
XP_005269732.1
XP_011537885.1
XP_011537886.1
XP_047280929.1
XP_047280930.1
XP_047280931.1
XP_047280932.1
XP_047280933.1
XP_047280934.1
XP_047280936.1
XP_047280937.1
XP_047280938.1
XP_047280939.1
XP_054221410.1
XP_054221411.1
XP_054221412.1
XP_054221413.1
XP_054221414.1
XP_054221415.1
XP_054221416.1
XP_054221417.1

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_147156.4 → NP_671512.1  phosphatidylcholine:ceramide cholinephosphotransferase 1

    See identical proteins and their annotated locations for NP_671512.1

    Status: REVIEWED

    Source sequence(s)
    AY332650, BC042899, BM141853, BM764008
    Consensus CDS
    CCDS7240.1
    UniProtKB/Swiss-Prot
    D3DWC4, Q68U43, Q6EKK0, Q75SP1, Q86VZ5
    Related
    ENSP00000354829.2, ENST00000361781.7
    Conserved Domains (2) summary
    cd09514
    Location:1 → 72
    SAM_SGMS1; SAM domain of sphingomyelin synthase
    pfam14360
    Location:276 → 349
    PAP2_C; PAP2 superfamily C-terminal

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000010.11 Reference GRCh38.p14 Primary Assembly

    Range
    50305600..50625184 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_047424974.1 → XP_047280930.1  phosphatidylcholine:ceramide cholinephosphotransferase 1 isoform X1

    UniProtKB/Swiss-Prot
    D3DWC4, Q68U43, Q6EKK0, Q75SP1, Q86VZ5

  2. XM_047424973.1 → XP_047280929.1  phosphatidylcholine:ceramide cholinephosphotransferase 1 isoform X1

    UniProtKB/Swiss-Prot
    D3DWC4, Q68U43, Q6EKK0, Q75SP1, Q86VZ5

  3. XM_047424975.1 → XP_047280931.1  phosphatidylcholine:ceramide cholinephosphotransferase 1 isoform X1

    UniProtKB/Swiss-Prot
    D3DWC4, Q68U43, Q6EKK0, Q75SP1, Q86VZ5

  4. XM_047424976.1 → XP_047280932.1  phosphatidylcholine:ceramide cholinephosphotransferase 1 isoform X1

    UniProtKB/Swiss-Prot
    D3DWC4, Q68U43, Q6EKK0, Q75SP1, Q86VZ5

  5. XM_047424977.1 → XP_047280933.1  phosphatidylcholine:ceramide cholinephosphotransferase 1 isoform X1

    UniProtKB/Swiss-Prot
    D3DWC4, Q68U43, Q6EKK0, Q75SP1, Q86VZ5

  6. XM_005269675.2 → XP_005269732.1  phosphatidylcholine:ceramide cholinephosphotransferase 1 isoform X1

    See identical proteins and their annotated locations for XP_005269732.1

    UniProtKB/Swiss-Prot
    D3DWC4, Q68U43, Q6EKK0, Q75SP1, Q86VZ5
    Conserved Domains (2) summary
    cd09514
    Location:1 → 72
    SAM_SGMS1; SAM domain of sphingomyelin synthase
    pfam14360
    Location:276 → 349
    PAP2_C; PAP2 superfamily C-terminal

  7. XM_047424978.1 → XP_047280934.1  phosphatidylcholine:ceramide cholinephosphotransferase 1 isoform X1

    UniProtKB/Swiss-Prot
    D3DWC4, Q68U43, Q6EKK0, Q75SP1, Q86VZ5

  8. XM_011539583.3 → XP_011537885.1  phosphatidylcholine:ceramide cholinephosphotransferase 1 isoform X1

    See identical proteins and their annotated locations for XP_011537885.1

    UniProtKB/Swiss-Prot
    D3DWC4, Q68U43, Q6EKK0, Q75SP1, Q86VZ5
    Conserved Domains (2) summary
    cd09514
    Location:1 → 72
    SAM_SGMS1; SAM domain of sphingomyelin synthase
    pfam14360
    Location:276 → 349
    PAP2_C; PAP2 superfamily C-terminal

  9. XM_047424982.1 → XP_047280938.1  phosphatidylcholine:ceramide cholinephosphotransferase 1 isoform X3

    UniProtKB/TrEMBL
    E6ZCI6

  10. XM_047424981.1 → XP_047280937.1  phosphatidylcholine:ceramide cholinephosphotransferase 1 isoform X3

    UniProtKB/TrEMBL
    E6ZCI6
    Related
    ENSP00000406795.2, ENST00000429490.5

  11. XM_011539584.4 → XP_011537886.1  phosphatidylcholine:ceramide cholinephosphotransferase 1 isoform X2

    UniProtKB/TrEMBL
    E6ZCI7
    Conserved Domains (2) summary
    cd09514
    Location:1 → 72
    SAM_SGMS1; SAM domain of sphingomyelin synthase
    smart00454
    Location:4 → 68
    SAM; Sterile alpha motif

  12. XM_047424980.1 → XP_047280936.1  phosphatidylcholine:ceramide cholinephosphotransferase 1 isoform X2

  13. XM_047424983.1 → XP_047280939.1  phosphatidylcholine:ceramide cholinephosphotransferase 1 isoform X4

RNA

  1. XR_007061953.1 RNA Sequence

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060934.1 Alternate T2T-CHM13v2.0

    Range
    51153786..51472591 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054365435.1 → XP_054221410.1  phosphatidylcholine:ceramide cholinephosphotransferase 1 isoform X1

    UniProtKB/Swiss-Prot
    D3DWC4, Q68U43, Q6EKK0, Q75SP1, Q86VZ5

  2. XM_054365436.1 → XP_054221411.1  phosphatidylcholine:ceramide cholinephosphotransferase 1 isoform X1

    UniProtKB/Swiss-Prot
    D3DWC4, Q68U43, Q6EKK0, Q75SP1, Q86VZ5

  3. XM_054365437.1 → XP_054221412.1  phosphatidylcholine:ceramide cholinephosphotransferase 1 isoform X1

    UniProtKB/Swiss-Prot
    D3DWC4, Q68U43, Q6EKK0, Q75SP1, Q86VZ5

  4. XM_054365441.1 → XP_054221416.1  phosphatidylcholine:ceramide cholinephosphotransferase 1 isoform X3

    UniProtKB/TrEMBL
    E6ZCI6

  5. XM_054365440.1 → XP_054221415.1  phosphatidylcholine:ceramide cholinephosphotransferase 1 isoform X3

    UniProtKB/TrEMBL
    E6ZCI6

  6. XM_054365438.1 → XP_054221413.1  phosphatidylcholine:ceramide cholinephosphotransferase 1 isoform X2

  7. XM_054365439.1 → XP_054221414.1  phosphatidylcholine:ceramide cholinephosphotransferase 1 isoform X2

  8. XM_054365442.1 → XP_054221417.1  phosphatidylcholine:ceramide cholinephosphotransferase 1 isoform X4

RNA

  1. XR_008488192.1 RNA Sequence

Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q86VZ5.3 GenPept UniProtKB/Swiss-Prot:Q86VZ5

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