Seroatlas · Human Serome Atlas

SNAPC4

snRNA-activating protein complex subunit 4

Also known as: FLJ13451, PTFalpha, SNAP190, SNPC4_HUMAN

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

Protein identityUniProt · HPA

UniProt accession: Q5SXM2
Gene: SNAPC4
Ensembl: ENSG00000165684
Chromosome: 9
Canonical length: 1469 aa
Protein class: Predicted intracellular proteins, Transcription factors
Subcellular location: Nucleoplasm,Nuclear membrane

OverviewNCBI Gene

This gene encodes the largest subunit of the small nuclear RNA-activating protein (SNAP) complex. The encoded protein contains a Myb DNA-binding domain, and is essential for RNA polymerase II and III polymerase transcription from small nuclear RNA promoters. A mutation in this gene is associated with ankylosing spondylitis. [provided by RefSeq, Jul 2016]

Canonical amino-acid sequenceUniProt

1469 residues, UniProt reviewed canonical sequence.

>Q5SXM2|SNAPC4
     1  MDVDAEREKI TQEIKELERI LDPGSSGSHV EISESSLESD SEADSLPSED LDPADPPISE
    61  EERWGEASND EDDPKDKTLP EDPETCLQLN MVYQEVIQEK LAEANLLLAQ NREQQEELMR
   121  DLAGSKGTKV KDGKSLPPST YMGHFMKPYF KDKVTGVGPP ANEDTREKAA QGIKAFEELL
   181  VTKWKNWEKA LLRKSVVSDR LQRLLQPKLL KLEYLHQKQS KVSSELERQA LEKQGREAEK
   241  EIQDINQLPE EALLGNRLDS HDWEKISNIN FEGSRSAEEI RKFWQNSEHP SINKQEWSRE
   301  EEERLQAIAA AHGHLEWQKI AEELGTSRSA FQCLQKFQQH NKALKRKEWT EEEDRMLTQL
   361  VQEMRVGSHI PYRRIVYYME GRDSMQLIYR WTKSLDPGLK KGYWAPEEDA KLLQAVAKYG
   421  EQDWFKIREE VPGRSDAQCR DRYLRRLHFS LKKGRWNLKE EEQLIELIEK YGVGHWAKIA
   481  SELPHRSGSQ CLSKWKIMMG KKQGLRRRRR RARHSVRWSS TSSSGSSSGS SGGSSSSSSS
   541  SSEEDEPEQA QAGEGDRALL SPQYMVPDMD LWVPARQSTS QPWRGGAGAW LGGPAASLSP
   601  PKGSSASQGG SKEASTTAAA PGEETSPVQV PARAHGPVPR SAQASHSADT RPAGAEKQAL
   661  EGGRRLLTVP VETVLRVLRA NTAARSCTQK EQLRQPPLPT SSPGVSSGDS VARSHVQWLR
   721  HRATQSGQRR WRHALHRRLL NRRLLLAVTP WVGDVVVPCT QASQRPAVVQ TQADGLREQL
   781  QQARLASTPV FTLFTQLFHI DTAGCLEVVR ERKALPPRLP QAGARDPPVH LLQASSSAQS
   841  TPGHLFPNVP AQEASKSASH KGSRRLASSR VERTLPQASL LASTGPRPKP KTVSELLQEK
   901  RLQEARAREA TRGPVVLPSQ LLVSSSVILQ PPLPHTPHGR PAPGPTVLNV PLSGPGAPAA
   961  AKPGTSGSWQ EAGTSAKDKR LSTMQALPLA PVFSEAEGTA PAASQAPALG PGQISVSCPE
  1021  SGLGQSQAPA ASRKQGLPEA PPFLPAAPSP TPLPVQPLSL THIGGPHVAT SVPLPVTWVL
  1081  TAQGLLPVPV PAVVSLPRPA GTPGPAGLLA TLLPPLTETR AAQGPRAPAL SSSWQPPANM
  1141  NREPEPSCRT DTPAPPTHAL SQSPAEADGS VAFVPGEAQV AREIPEPRTS SHADPPEAEP
  1201  PWSGRLPAFG GVIPATEPRG TPGSPSGTQE PRGPLGLEKL PLRQPGPEKG ALDLEKPPLP
  1261  QPGPEKGALD LGLLSQEGEA ATQQWLGGQR GVRVPLLGSR LPYQPPALCS LRALSGLLLH
  1321  KKALEHKATS LVVGGEAERP AGALQASLGL VRGQLQDNPA YLLLRARFLA AFTLPALLAT
  1381  LAPQGVRTTL SVPSRVGSES EDEDLLSELE LADRDGQPGC TTATCPIQGA PDSGKCSASS
  1441  CLDTSNDPDD LDVLRTRHAR HTRKRRRLV

LocalizationUniProt · AlphaFold · HPA

Whether an antibody against SNAPC4 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): 0.58
Highest tissue expression: 5.5 nTPM

Expression across tissuesHPA

Tissue

testis: 5.5 nTPM
bone marrow: 5.1 nTPM
pancreas: 4.8 nTPM
cerebellum: 4.6 nTPM
salivary gland: 4.5 nTPM
skin: 4.2 nTPM

Single-cell type

respiratory ciliated cells: 40 nCPM
endometrial ciliated cells: 34 nCPM
fallopian tube ciliated cells: 30 nCPM
ependymal cells: 28 nCPM
lactotrophs: 23 nCPM
thyrotrophs: 22 nCPM

Immune cell

NK-cell: 0.2 nTPM
gdT-cell: 0.1 nTPM
memory B-cell: 0.1 nTPM
memory CD4 T-cell: 0.1 nTPM
non-classical monocyte: 0.1 nTPM
plasmacytoid DC: 0.1 nTPM

Brain region

cerebral cortex: 17 nTPM
amygdala: 14 nTPM
basal ganglia: 14 nTPM
hippocampal formation: 13 nTPM
cerebellum: 10 nTPM
hypothalamus: 9.8 nTPM

DiseaseUniProt · ClinVar · IEDB · PubMed

Four sources answering four different questions about SNAPC4.

Disease | AllUniProt

Conditions SNAPC4 is implicated in, by any mechanism.

Neurodevelopmental disorder with motor regression, progressive spastic paraplegia, and oromotor dysfunction (NEDRSO) MIM:620515

Disease | GeneticClinVar

11 pathogenic / likely-pathogenic of 420 ClinVar records.

Conditions with pathogenic or likely-pathogenic variants.

Neurodevelopmental disorder with motor regression, progressive spastic paraplegia, and oromotor dysfunction
SNAPC4 related condition
Sarcoma

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): 0.98
gnomAD pLI: 0
gnomAD missense Z: -1.08
DepMap mean gene effect: -1.18
DepMap dependency class: common

Cancer expressionTCGA

Across TCGA tumor cohorts, this protein is over-expressed in roughly 5% 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

KeywordsUniProt

InteractionsUniProt · HPA

Protein binding partners of SNAPC4 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 SNAPC4 as an antibody target. Whether an autoantibody or antibody against SNAPC4 could matter depends on whether native SNAPC4 is physically reachable, whether the body needs it intact, and whether it acts in a disease-relevant tissue.

SNAPC4 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 SNAPC4 as an autoantigen. Seroatlas presents hypothesis context only and does not manufacture a known-serology claim.

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