Seroatlas · Human Serome Atlas

SCNM1

Sodium channel modifier 1

Also known as: MGC3180, SCNM1_HUMAN

Cross-references: UniProt · Ensembl · Human Protein Atlas · GeneCards · NCBI Gene

Protein identityUniProt · HPA

UniProt accession
Q9BWG6
Gene
SCNM1
Ensembl
ENSG00000163156
Chromosome
1
Canonical length
230 aa
Protein class
Predicted intracellular proteins
Subcellular location
Nucleoplasm

OverviewNCBI Gene

SCNM1 is a zinc finger protein and putative splicing factor. In mice, Scnm1 modifies phenotypic expression of Scn8a (MIM 600702) mutations (Buchner et al., 2003 [PubMed 12920299]).[supplied by OMIM, Oct 2009]

Canonical amino-acid sequenceUniProt

230 residues, UniProt reviewed canonical sequence.

>Q9BWG6|SCNM1
     1  MSFKREGDDW SQLNVLKKRR VGDLLASYIP EDEALMLRDG RFACAICPHR PVLDTLAMLT
    61  AHRAGKKHLS SLQLFYGKKQ PGKERKQNPK HQNELRREET KAEAPLLTQT RLITQSALHR
   121  APHYNSCCRR KYRPEAPGPS VSLSPMPPSE VKLQSGKISR EPEPAAGPQA EESATVSAPA
   181  PMSPTRRRAL DHYLTLRSSG WIPDGRGRWV KDENVEFDSD EEEPPDLPLD

LocalizationUniProt · AlphaFold · HPA

Whether an antibody against SCNM1 can act on the native protein depends on physical access: surface and secreted proteins are reachable by circulating antibodies, intracellular proteins usually are not.

Antibody reachability
Intracellular
Secreted
No
Transmembrane segments
0
Mean surface accessibility (rSASA)
0.57
Highest tissue expression
61 nTPM

Expression across tissuesHPA

Tissue

  • skeletal muscle: 61 nTPM
  • bone marrow: 44 nTPM
  • lymph node: 37 nTPM
  • blood vessel: 36 nTPM
  • spinal cord: 33 nTPM
  • spleen: 33 nTPM

Single-cell type

  • hofbauer cells: 119 nCPM
  • esophageal apical cells: 76 nCPM
  • cone photoreceptor cells: 68 nCPM
  • rod photoreceptor cells: 63 nCPM
  • cdc: 60 nCPM
  • megakaryocytes: 56 nCPM

Immune cell

  • basophil: 287 nTPM
  • plasmacytoid DC: 262 nTPM
  • myeloid DC: 255 nTPM
  • eosinophil: 204 nTPM
  • neutrophil: 192 nTPM
  • classical monocyte: 190 nTPM

Brain region

  • white matter: 22 nTPM
  • medulla oblongata: 20 nTPM
  • thalamus: 20 nTPM
  • cerebellum: 20 nTPM
  • pons: 19 nTPM
  • hypothalamus: 19 nTPM

DiseaseUniProt · ClinVar · IEDB · PubMed

Four sources answering four different questions about SCNM1.

Disease | AllUniProt

Conditions SCNM1 is implicated in, by any mechanism.

Disease | GeneticClinVar

2 pathogenic / likely-pathogenic of 41 ClinVar records.

Conditions with pathogenic or likely-pathogenic variants.

  • Orofaciodigital syndrome 19

Genetic constraint and essentialitygnomAD · DepMap

Does the body need this protein intact? Low LOEUF or a strong DepMap dependency means loss or blockade of the protein is likely to be felt.

gnomAD LOEUF (loss-of-function intolerance)
1.1
gnomAD pLI
0
gnomAD missense Z
0.13
DepMap mean gene effect
-0.41
DepMap dependency class
selective

Cancer expressionTCGA

Across TCGA tumor cohorts, this protein is over-expressed in roughly 11% of surveyed tumor types (aggregate summary; per-cohort expression, alteration, and survival load in the interactive view).

OntologyGO

Biological processes

Molecular functions

Cellular components

Protein domainsUniProt · Pfam · InterPro

  • Sodium channel modifier 1, zinc-finger
  • Sodium channel modifier 1, acidic C-terminal domain
  • Sodium channel modifier 1
  • Zinc-finger of sodium channel modifier 1
  • Acidic C-terminal region of sodium channel modifier 1 SCNM1

KeywordsUniProt

InteractionsUniProt · HPA

Protein binding partners of SCNM1 in the human serome: UniProt-annotated complex subunits plus reported interactors. Each links to its own Seroatlas record.

Antibody and autoantibody relevanceSeroatlas analysis

Seroatlas reads SCNM1 as an antibody target. Whether an autoantibody or antibody against SCNM1 could matter depends on whether native SCNM1 is physically reachable, whether the body needs it intact, and whether it acts in a disease-relevant tissue.

SCNM1 is annotated as predominantly intracellular. Intracellular proteins are common autoantibody markers, becoming visible to the immune system after cell injury or altered processing, but are usually markers of disease rather than direct drivers.

Annotation status

The present source text does not explicitly label SCNM1 as an autoantigen. Seroatlas presents hypothesis context only and does not manufacture a known-serology claim.

Canonical record: https://seroatlas.com/gene/SCNM1. Study-independent annotations aggregated from UniProt, Human Protein Atlas, PubMed, IEDB, Pfam, InterPro, Gene Ontology, AlphaFold, gnomAD, DepMap, ClinVar, TCGA. Catalog release seroatlas-reviewed-human-uniprot-20260313.

Seroatlas is the reference for exploring autoantibody and antibody serology at the human-protein level: the autoreactome and human serome, multiplex serology (HuProt, HuScan, VirScan, PhIP-Seq).

© 2026 · Seroatlas, Discover Oregon LLC · Terms of use

Loading the interactive Seroatlas protein explorer...