SMARCA4 gene

SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4

The SMARCA4 gene provides instructions for making a protein called BRG1, which forms one piece (subunit) of several different protein groupings called SWI/SNF protein complexes. SWI/SNF complexes regulate gene activity (expression) by a process known as chromatin remodeling. Chromatin is the network of DNA and protein that packages DNA into chromosomes. The structure of chromatin can be changed (remodeled) to alter how tightly DNA is packaged. Chromatin remodeling is one way gene expression is regulated during development; when DNA is tightly packed, gene expression is lower than when DNA is loosely packed. The BRG1 protein uses a molecule called ATP to provide energy for chromatin remodeling, although the protein's specific role in remodeling is unclear.

Through their ability to regulate gene activity, SWI/SNF complexes are involved in many processes, including repairing damaged DNA; copying (replicating) DNA; and controlling the growth, division, and maturation (differentiation) of cells. Through these processes, the BRG1 protein and other SWI/SNF subunits are thought to act as tumor suppressors, which keep cells from growing and dividing too rapidly or in an uncontrolled way.

At least 16 mutations in the SMARCA4 gene can cause Coffin-Siris syndrome. This condition is characterized by delayed development, abnormalities of the fifth (pinky) fingers or toes, and characteristic facial features that are described as coarse. The SMARCA4 gene mutations involved in Coffin-Siris syndrome are germline mutations, which means that they are present in cells throughout the body. The mutations change single protein building blocks (amino acids) in or remove an amino acid from the BRG1 protein. Although it is unclear how these changes affect SWI/SNF complexes, researchers suggest that SMARCA4 gene mutations result in abnormal chromatin remodeling. Disturbance of this process alters the activity of many genes and disrupts several cellular processes, which could explain the diverse signs and symptoms of Coffin-Siris syndrome. People with Coffin-Siris syndrome do not appear to have an increased risk of cancer (see below).

At least six germline mutations in the SMARCA4 gene have been identified in people with rhabdoid tumor predisposition syndrome (RTPS). RTPS is characterized by a high risk of developing cancerous (malignant) growths called rhabdoid tumors. These tumors most often occur in the brain and spinal cord (central nervous system) or in the kidney, but they can occur in other organs and tissues of the body. Some affected children also develop noncancerous (benign) tumors called schwannomas, which grow on nerves. Women with RTPS are at increased risk of developing a rare type of ovarian cancer called small cell cancer of the ovary, hypercalcemic type (SCCOHT).

In addition to the germline mutation affecting one copy of the SMARCA4 gene in each cell, an additional genetic change that deletes the normal copy of the gene is needed for a tumor to develop. This additional change is present only in the cancerous cells. Such changes are known as somatic mutations. In combination, the germline and somatic mutations lead to the absence of BRG1 protein. This absence likely impairs the tumor suppressor functions of the protein, but the specific mechanism that leads to rhabdoid tumors is unknown.

Genetics Home Reference provides information about lung cancer.

Somatic mutations in both copies of the SMARCA4 gene, which result in the absence of SMARCA4 protein, cause noninherited (sporadic) rhabdoid tumors in children. Somatic mutations in the SMARCA4 gene have also been found in certain other types of cancer, particularly lung cancer and other cancers in the chest called SMARCA4-deficiency thoracic sarcomas. The mechanism by which mutations in the SMARCA4 gene contribute to these tumors is unknown, although it is thought that changes in SWI/SNF complexes are involved. These changes may impair normal cell differentiation, which leads to the overgrowth of certain cell types, causing cancer. Alternatively, abnormal SWI/SNF complexes may disrupt the regulation of genes that help control the growth and division of cells, which leads to cancer. It is likely that other genetic changes in addition to SMARCA4 gene mutations are necessary for cancer development.

Cytogenetic Location: 19p13.2, which is the short (p) arm of chromosome 19 at position 13.2

Molecular Location: base pairs 10,960,997 to 11,062,277 on chromosome 19 (Homo sapiens Updated Annotation Release 109.20200522, GRCh38.p13) (NCBI)

Cytogenetic Location: 19p13.2, which is the short (p) arm of chromosome 19 at position 13.2
  • ATP-dependent helicase SMARCA4
  • BAF190
  • BAF190A
  • brahma protein-like 1
  • BRG1
  • BRG1-associated factor 190A
  • BRM/SWI2-related gene 1
  • FLJ39786
  • hSNF2b
  • MRD16
  • nuclear protein GRB1
  • protein brahma homolog 1
  • protein BRG-1
  • RTPS2
  • SNF2
  • SNF2-beta
  • SNF2-like 4
  • SNF2L4
  • SNF2LB
  • sucrose nonfermenting-like 4
  • SWI2
  • transcription activator BRG1