Seroatlas · Human Serome Atlas

SMC4

Structural maintenance of chromosomes protein 4

Also known as: CAP-C, hCAP-C, SMC4_HUMAN, SMC4L1

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

Protein identityUniProt · HPA

UniProt accession: Q9NTJ3
Gene: SMC4
Ensembl: ENSG00000113810
Chromosome: 3
Canonical length: 1288 aa
Protein class: Plasma proteins, Predicted intracellular proteins
Subcellular location: Nuclear speckles,Cytosol

OverviewNCBI Gene

This gene belongs to the 'structural maintenance of chromosomes' (SMC) gene family. Members of this gene family play a role in two changes in chromosome structure during mitotic segregation of chromosomes- chromosome condensation and sister chromatid cohesion. The protein encoded by this gene is likely a subunit of the 13S condensin complex, which is involved in chromosome condensation. A pseudogene related to this gene is located on chromosome 2. [provided by RefSeq, Jun 2016]

Canonical amino-acid sequenceUniProt

1288 residues, UniProt reviewed canonical sequence.

>Q9NTJ3|SMC4
     1  MPRKGTQPST ARRREEGPPP PSPDGASSDA EPEPPSGRTE SPATAAETAS EELDNRSLEE
    61  ILNSIPPPPP PAMTNEAGAP RLMITHIVNQ NFKSYAGEKI LGPFHKRFSC IIGPNGSGKS
   121  NVIDSMLFVF GYRAQKIRSK KLSVLIHNSD EHKDIQSCTV EVHFQKIIDK EGDDYEVIPN
   181  SNFYVSRTAC RDNTSVYHIS GKKKTFKDVG NLLRSHGIDL DHNRFLILQG EVEQIAMMKP
   241  KGQTEHDEGM LEYLEDIIGC GRLNEPIKVL CRRVEILNEH RGEKLNRVKM VEKEKDALEG
   301  EKNIAIEFLT LENEIFRKKN HVCQYYIYEL QKRIAEMETQ KEKIHEDTKE INEKSNILSN
   361  EMKAKNKDVK DTEKKLNKIT KFIEENKEKF TQLDLEDVQV REKLKHATSK AKKLEKQLQK
   421  DKEKVEEFKS IPAKSNNIIN ETTTRNNALE KEKEKEEKKL KEVMDSLKQE TQGLQKEKES
   481  REKELMGFSK SVNEARSKMD VAQSELDIYL SRHNTAVSQL TKAKEALIAA SETLKERKAA
   541  IRDIEGKLPQ TEQELKEKEK ELQKLTQEET NFKSLVHDLF QKVEEAKSSL AMNRSRGKVL
   601  DAIIQEKKSG RIPGIYGRLG DLGAIDEKYD VAISSCCHAL DYIVVDSIDI AQECVNFLKR
   661  QNIGVATFIG LDKMAVWAKK MTEIQTPENT PRLFDLVKVK DEKIRQAFYF ALRDTLVADN
   721  LDQATRVAYQ KDRRWRVVTL QGQIIEQSGT MTGGGSKVMK GRMGSSLVIE ISEEEVNKME
   781  SQLQNDSKKA MQIQEQKVQL EERVVKLRHS EREMRNTLEK FTASIQRLIE QEEYLNVQVK
   841  ELEANVLATA PDKKKQKLLE ENVSAFKTEY DAVAEKAGKV EAEVKRLHNT IVEINNHKLK
   901  AQQDKLDKIN KQLDECASAI TKAQVAIKTA DRNLQKAQDS VLRTEKEIKD TEKEVDDLTA
   961  ELKSLEDKAA EVVKNTNAAE ESLPEIQKEH RNLLQELKVI QENEHALQKD ALSIKLKLEQ
  1021  IDGHIAEHNS KIKYWHKEIS KISLHPIEDN PIEEISVLSP EDLEAIKNPD SITNQIALLE
  1081  ARCHEMKPNL GAIAEYKKKE ELYLQRVAEL DKITYERDSF RQAYEDLRKQ RLNEFMAGFY
  1141  IITNKLKENY QMLTLGGDAE LELVDSLDPF SEGIMFSVRP PKKSWKKIFN LSGGEKTLSS
  1201  LALVFALHHY KPTPLYFMDE IDAALDFKNV SIVAFYIYEQ TKNAQFIIIS LRNNMFEISD
  1261  RLIGIYKTYN ITKSVAVNPK EIASKGLC

LocalizationUniProt · AlphaFold · HPA

Whether an antibody against SMC4 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): 0.34
Highest tissue expression: 56 nTPM

Expression across tissuesHPA

Tissue

thymus: 56 nTPM
lymph node: 35 nTPM
bone marrow: 34 nTPM
testis: 31 nTPM
tonsil: 30 nTPM
esophagus: 22 nTPM

Single-cell type

esophageal apical cells: 928 nCPM
monocyte progenitors: 495 nCPM
erythrocyte progenitors: 485 nCPM
early primary spermatocytes: 387 nCPM
differentiating spermatogonia: 307 nCPM
megakaryocyte progenitors: 283 nCPM

Immune cell

basophil: 75 nTPM
T-reg: 30 nTPM
eosinophil: 24 nTPM
memory CD4 T-cell: 18 nTPM
memory B-cell: 17 nTPM
non-classical monocyte: 16 nTPM

Brain region

white matter: 9.6 nTPM
thalamus: 7.2 nTPM
basal ganglia: 6.8 nTPM
hypothalamus: 6.8 nTPM
cerebral cortex: 6.7 nTPM
pons: 6.5 nTPM

DiseaseUniProt · ClinVar · IEDB · PubMed

Four sources answering four different questions about SMC4.

Disease | ImmuneIEDB

Conditions an epitope on SMC4 was assayed in.

glioblastoma T cell

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): 0.48
gnomAD pLI: 0
gnomAD missense Z: 1.08
DepMap mean gene effect: -1.58
DepMap dependency class: pan

Cancer expressionTCGA

Across TCGA tumor cohorts, this protein is over-expressed in roughly 12% 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 SMC4 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 SMC4 as an antibody target. Whether an autoantibody or antibody against SMC4 could matter depends on whether native SMC4 is physically reachable, whether the body needs it intact, and whether it acts in a disease-relevant tissue.

SMC4 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 SMC4 as an autoantigen. Seroatlas presents hypothesis context only and does not manufacture a known-serology claim.

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