Seroatlas · Human Serome Atlas

PRPF40B

Pre-mRNA-processing factor 40 homolog B

Also known as: HYPC, PR40B_HUMAN

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

Protein identityUniProt · HPA

UniProt accession: Q6NWY9
Gene: PRPF40B
Ensembl: ENSG00000110844
Chromosome: 12
Canonical length: 871 aa
Protein class: Predicted intracellular proteins
Subcellular location: Nucleoplasm,Nuclear bodies,Aggresome,Cytosol

OverviewNCBI Gene

This gene encodes a WW-domain containing protein similar to yeast splicing factor PRP40. This protein has been shown to interact with Huntingtin and methyl CpG binding protein 2 (MeCP2). Alternative splicing results in different transcript variants. [provided by RefSeq, Aug 2014]

Canonical amino-acid sequenceUniProt

871 residues, UniProt reviewed canonical sequence.

>Q6NWY9|PRPF40B
     1  MMPPPFMPPP GIPPPFPPMG LPPMSQRPPA IPPMPPGILP PMLPPMGAPP PLTQIPGMVP
    61  PMMPGMLMPA VPVTAATAPG ADTASSAVAG TGPPRALWSE HVAPDGRIYY YNADDKQSVW
   121  EKPSVLKSKA ELLLSQCPWK EYKSDTGKPY YYNNQSKESR WTRPKDLDDL EVLVKQEAAG
   181  KQQQQLPQTL QPQPPQPQPD PPPVPPGPTP VPTGLLEPEP GGSEDCDVLE ATQPLEQGFL
   241  QQLEEGPSSS GQHQPQQEEE ESKPEPERSG LSWSNREKAK QAFKELLRDK AVPSNASWEQ
   301  AMKMVVTDPR YSALPKLSEK KQAFNAYKAQ REKEEKEEAR LRAKEAKQTL QHFLEQHERM
   361  TSTTRYRRAE QTFGELEVWA VVPERDRKEV YDDVLFFLAK KEKEQAKQLR RRNIQALKSI
   421  LDGMSSVNFQ TTWSQAQQYL MDNPSFAQDH QLQNMDKEDA LICFEEHIRA LEREEEEERE
   481  RARLRERRQQ RKNREAFQTF LDELHETGQL HSMSTWMELY PAVSTDVRFA NMLGQPGSTP
   541  LDLFKFYVEE LKARFHDEKK IIKDILKDRG FCVEVNTAFE DFAHVISFDK RAAALDAGNI
   601  KLTFNSLLEK AEAREREREK EEARRMRRRE AAFRSMLRQA VPALELGTAW EEVRERFVCD
   661  SAFEQITLES ERIRLFREFL QVLEQTECQH LHTKGRKHGR KGKKHHHKRS HSPSGSESEE
   721  EELPPPSLRP PKRRRRNPSE SGSEPSSSLD SVESGGAALG GRGSPSSHLL GADHGLRKAK
   781  KPKKKTKKRR HKSNSPESET DPEEKAGKES DEKEQEQDKD RELQQAELPN RSPGFGIKKE
   841  KTGWDTSESE LSEGELERRR RTLLQQLDDH Q

LocalizationUniProt · AlphaFold · HPA

Whether an antibody against PRPF40B 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): 0.49
Highest tissue expression: 33 nTPM

Expression across tissuesHPA

Tissue

testis: 33 nTPM
thyroid gland: 29 nTPM
kidney: 27 nTPM
pituitary gland: 26 nTPM
ovary: 25 nTPM
skeletal muscle: 24 nTPM

Single-cell type

myonuclei: 156 nCPM
early primary spermatocytes: 102 nCPM
fibro-adipogenic progenitors: 98 nCPM
choroid plexus epithelial cells: 86 nCPM
oligodendrocyte progenitor cells: 86 nCPM
distal convoluted tubule cells: 85 nCPM

Immune cell

NK-cell: 1.2 nTPM
MAIT T-cell: 1.1 nTPM
naive CD8 T-cell: 0.9 nTPM
memory CD4 T-cell: 0.8 nTPM
naive CD4 T-cell: 0.8 nTPM
gdT-cell: 0.7 nTPM

Brain region

cerebral cortex: 27 nTPM
hypothalamus: 24 nTPM
medulla oblongata: 23 nTPM
amygdala: 23 nTPM
pons: 22 nTPM
hippocampal formation: 21 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): 0.25
gnomAD pLI: 1
gnomAD missense Z: 1.07
DepMap mean gene effect: -0.13
DepMap dependency class: selective

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 PRPF40B in the human serome: UniProt-annotated complex subunits plus reported interactors. Each links to its own Seroatlas record.

RBM25

Antibody and autoantibody relevanceSeroatlas analysis

Seroatlas reads PRPF40B as an antibody target. Whether an autoantibody or antibody against PRPF40B could matter depends on whether native PRPF40B is physically reachable, whether the body needs it intact, and whether it acts in a disease-relevant tissue.

PRPF40B 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 PRPF40B as an autoantigen. Seroatlas presents hypothesis context only and does not manufacture a known-serology claim.

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