Seroatlas · Human Serome Atlas

SP140

Nuclear body protein SP140

Also known as: LYSP100-A, LYSP100-B, SP140_HUMAN

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

Protein identityUniProt · HPA

UniProt accession: Q13342
Gene: SP140
Ensembl: ENSG00000079263
Chromosome: 2
Canonical length: 867 aa
Protein class: Predicted intracellular proteins, Transcription factors
Subcellular location: Nucleoli fibrillar center,Mitochondria

OverviewNCBI Gene

This gene encodes a member of the SP100 family of proteins, which are share common domains including an N-terminal homogeneously staining region domain followed by a SP100/autoimmune regulator/NucP41/P75/deformed epidermal autoregulatory factor domain, a plant homeobox zinc finger, and a bromodomain. The encoded protein is interferon-inducible and is expressed at high levels in the nuclei of leukocytes. Variants of this gene have been associated with multiple sclerosis, Crohn's disease, and chronic lymphocytic leukemia. Alternative splicing results in multiple variants. [provided by RefSeq, Aug 2016]

Canonical amino-acid sequenceUniProt

867 residues, UniProt reviewed canonical sequence.

>Q13342|SP140
     1  MAQQGQQGQM ASGDSNLNFR MVAEIQNVEG QNLQEQVCPE PIFRFFRENK VEIASAITRP
    61  FPFLMGLRDR SFISEQMYEH FQEAFRNLVP VTRVMYCVLS ELEKTFGWSH LEALFSRINL
   121  MAYPDLNEIY RSFQNVCYEH SPLQMNNVND LEDRPRLLPY GKQENSNACH EMDDIAVPQE
   181  ALSSSPRCEP GFSSESCEQL ALPKAGGGDA EDAPSLLPGG GVSCKLAIQI DEGESEEMPK
   241  LLPYDTEVLE SNGMIDAART YSTAPGEKQG EEEGRNSPRK RNQDKEKYQE SPEGRDKETF
   301  DLKTPQVTNE GEPEKGLCLL PGEGEEGSDD CSEMCDGEEP QEASSSLARC GSVSCLSAET
   361  FDLKTPQVTN EGEPEKELSL LPGEGEEGSD DCSEMCDGEE RQEASSSLAR RGSVSSELEN
   421  HPMNEEGESE ELASSLLYDN VPGAEQSAYE NEKCSCVMCF SEEVPGSPEA RTESDQACGT
   481  MDTVDIANNS TLGKPKRKRR KKRGHGWSRM RMRRQENSQQ NDNSKADGQV VSSEKKANVN
   541  LKDLSKIRGR KRGKPGTRFT QSDRAAQKRV RSRASRKHKD ETVDFKAPLL PVTCGGVKGI
   601  LHKKKLQQGI LVKCIQTEDG KWFTPTEFEI KGGHARSKNW RLSVRCGGWP LRWLMENGFL
   661  PDPPRIRYRK KKRILKSQNN SSVDPCMRNL DECEVCRDGG ELFCCDTCSR VFHEDCHIPP
   721  VEAERTPWNC IFCRMKESPG SQQCCQESEV LERQMCPEEQ LKCEFLLLKV YCCSESSFFA
   781  KIPYYYYIRE ACQGLKEPMW LDKIKKRLNE HGYPQVEGFV QDMRLIFQNH RASYKYKDFG
   841  QMGFRLEAEF EKNFKEVFAI QETNGNN

LocalizationUniProt · AlphaFold · HPA

Whether an antibody against SP140 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): 0.54
Highest tissue expression: 52 nTPM

Expression across tissuesHPA

Tissue

tonsil: 52 nTPM
lymph node: 51 nTPM
spleen: 26 nTPM
appendix: 24 nTPM
small intestine: 15 nTPM
thymus: 6.4 nTPM

Single-cell type

b-cells: 428 nCPM
t-cells: 216 nCPM
plasma cells: 190 nCPM
nk-cells: 154 nCPM
microglia: 106 nCPM
innate lymphoid cells: 66 nCPM

Immune cell

memory B-cell: 98 nTPM
naive B-cell: 71 nTPM
neutrophil: 34 nTPM
MAIT T-cell: 26 nTPM
memory CD8 T-cell: 25 nTPM
gdT-cell: 23 nTPM

Brain region

thalamus: 5.1 nTPM
medulla oblongata: 4 nTPM
white matter: 3.6 nTPM
pons: 3.5 nTPM
spinal cord: 2.9 nTPM
cerebral cortex: 2.8 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): 0.59
gnomAD pLI: 0
gnomAD missense Z: 0.79
DepMap mean gene effect: 0.15
DepMap dependency class: none

Cancer expressionTCGA

Across TCGA tumor cohorts, this protein is over-expressed in roughly 3% 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 SP140 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 SP140 as an antibody target. Whether an autoantibody or antibody against SP140 could matter depends on whether native SP140 is physically reachable, whether the body needs it intact, and whether it acts in a disease-relevant tissue.

SP140 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.

Source-annotated serology context

The source annotations explicitly mention antibody, autoantibody, autoantigen, or autoimmune context. This is biological context, not study-specific reactivity.

This gene encodes a member of the SP100 family of proteins, which are share common domains including an N-terminal homogeneously staining region domain followed by a SP100/autoimmune regulator/NucP41/P75/deformed epidermal autoregulatory factor domain, a plant homeobox zinc finger, and a bromodomain.

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