Seroatlas · Human Serome Atlas

SNRNP40

U5 small nuclear ribonucleoprotein 40 kDa protein

Also known as: HPRP8BP, PRP8BP, PRPF8BP, SNR40_HUMAN, SPF38, WDR57

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

Protein identityUniProt · HPA

UniProt accession: Q96DI7
Gene: SNRNP40
Ensembl: ENSG00000060688
Chromosome: 1
Canonical length: 357 aa
Protein class: Predicted intracellular proteins, Predicted membrane proteins
Subcellular location: Nuclear speckles

OverviewNCBI Gene

This gene encodes a component of the U5 small nuclear ribonucleoprotein (snRNP) particle. The U5 snRNP is part of the spliceosome, a multiprotein complex that catalyzes the removal of introns from pre-messenger RNAs. [provided by RefSeq, Jul 2008]

Canonical amino-acid sequenceUniProt

357 residues, UniProt reviewed canonical sequence.

>Q96DI7|SNRNP40
     1  MIEQQKRKGP ELPLVPVKRQ RHELLLGAGS GPGAGQQQAT PGALLQAGPP RCSSLQAPIM
    61  LLSGHEGEVY CCKFHPNGST LASAGFDRLI LLWNVYGDCD NYATLKGHSG AVMELHYNTD
   121  GSMLFSASTD KTVAVWDSET GERVKRLKGH TSFVNSCYPA RRGPQLVCTG SDDGTVKLWD
   181  IRKKAAIQTF QNTYQVLAVT FNDTSDQIIS GGIDNDIKVW DLRQNKLTYT MRGHADSVTG
   241  LSLSSEGSYL LSNAMDNTVR VWDVRPFAPK ERCVKIFQGN VHNFEKNLLR CSWSPDGSKI
   301  AAGSADRFVY VWDTTSRRIL YKLPGHAGSI NEVAFHPDEP IIISASSDKR LYMGEIQ

LocalizationUniProt · AlphaFold · HPA

Whether an antibody against SNRNP40 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): 0.29
Highest tissue expression: 38 nTPM

Expression across tissuesHPA

Tissue

tonsil: 38 nTPM
thymus: 38 nTPM
lymph node: 33 nTPM
bone marrow: 28 nTPM
urinary bladder: 22 nTPM
ovary: 22 nTPM

Single-cell type

early primary spermatocytes: 165 nCPM
cytotrophoblasts: 137 nCPM
migrating cytotrophoblasts: 124 nCPM
megakaryocytes: 111 nCPM
extravillous trophoblasts: 106 nCPM
erythrocyte progenitors: 101 nCPM

Immune cell

total PBMC: 161 nTPM
naive CD8 T-cell: 116 nTPM
MAIT T-cell: 113 nTPM
NK-cell: 111 nTPM
T-reg: 111 nTPM
basophil: 103 nTPM

Brain region

white matter: 38 nTPM
cerebellum: 30 nTPM
pons: 30 nTPM
medulla oblongata: 29 nTPM
basal ganglia: 27 nTPM
spinal cord: 26 nTPM

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): 0.4
gnomAD pLI: 0.85
gnomAD missense Z: 1.55
DepMap mean gene effect: -0.72
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

RNA binding

Cellular components

Protein domainsUniProt · Pfam · InterPro

KeywordsUniProt

InteractionsUniProt · HPA

Protein binding partners of SNRNP40 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 SNRNP40 as an antibody target. Whether an autoantibody or antibody against SNRNP40 could matter depends on whether native SNRNP40 is physically reachable, whether the body needs it intact, and whether it acts in a disease-relevant tissue.

SNRNP40 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 SNRNP40 as an autoantigen. Seroatlas presents hypothesis context only and does not manufacture a known-serology claim.

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