SFTPB
protein-codingsurfactant protein B
Gene summary
This gene encodes the pulmonary-associated surfactant protein B (SPB), an amphipathic surfactant protein essential for lung function and homeostasis after birth. Pulmonary surfactant is a surface-active lipoprotein complex composed of 90% lipids and 10% proteins which include plasma proteins and apolipoproteins SPA, SPB, SPC and SPD. The surfactant is secreted by the alveolar cells of the lung and maintains the stability of pulmonary tissue by reducing the surface tension of fluids that coat the lung. The SPB enhances the rate of spreading and increases the stability of surfactant monolayers in vitro. Multiple mutations in this gene have been identified, which cause pulmonary surfactant metabolism dysfunction type 1, also called pulmonary alveolar proteinosis due to surfactant protein B deficiency, and are associated with fatal respiratory distress in the neonatal period. Alternatively spliced transcript variants encoding the same protein have been identified.[provided by RefSeq, Feb 2010]
- SFTP3
MANE transcript
Inheritance
ClinVar variants
Top phenotype
gnomAD constraint
Max pathogenic AF
Genomic locus
External References & Databases
Transcript & Mutation Effects
hg38 • Region Span ~11.4 kbGenCC Phenotypes & Disease Associations
Curated gene-disease validity assertions and inheritance patterns
Inheritance Pattern: AR
Disease ID:MONDO:0009929
Submitter: Labcorp Genetics (formerly Invitae)
Inheritance Pattern: AR
Disease ID:MONDO:0009929
Submitter: Genomics England PanelApp
Inheritance Pattern: AR
Disease ID:MONDO:0009929
Submitter: Orphanet
Inheritance Pattern: AR
Disease ID:MONDO:0009929
Submitter: PanelApp Australia
Inheritance Pattern: AR
Disease ID:MONDO:0009929
Submitter: ClinGen
*SFTPB* was first reported in relation to autosomal recessive surfactant metabolism dysfunction, pulmonary, 1, also known as *SFTPB*-related interstitial lung disease, in 1993 (Nogee et al., PMID:8421459) in an index family with three full term neonates that passed away due to respiratory failure. All three siblings were found to be homozygous for the *SFTPB* mutation ‘121ins2’ (NM_000542.5:c.361delinsGAA) that is reported to be found in up to two thirds of mutant alleles of *SFTPB*. *SFTPB* encodes the pulmonary-associated surfactant B protein, known as SP-B, and was the first reported genetic cause of respiratory distress syndrome in infants. SP-B is expressed both in alveolar type II cells and in non-ciliated bronchial epithelial cells, although only alveolar type II cells fully process the proprotein to its mature form that is secreted into the airspaces, and is essential for lung function after birth (Nogee et al., PMID:8421459; Hartl et al., PMID:15819986). Patients typically present at term, often after an uneventful pregnancy, with respiratory distress, tachypnea, dyspnea, and apnea. Lung biopsy of patients shows alveolar proteinosis and interstitial fibrosis. Without lung transplant, the disease progression typically leads to fatal respiratory failure within months (Hartl et al., PMID:15819986; Desroziers et al., PMID:37380697). Rare cases have been reported of prolonged survival without lung transplant (Khalsi et al., PMID:37455866; López-Andreu et al., PMID:28888561, Ballard et al., PMID: 7491219, Dunbar et al., PMID 10960490) and one study reports adult onset in a proband confirmed to have biallelic SFTPB variants (Desroziers et al., PMID:37380697). More than 700 unique variants (e.g. synonymous, missense, in-frame indel, nonsense, frameshift) have been reported in humans by ClinVar. Evidence supporting this gene-disease relationship includes case-level data and experimental data. Seven variants of different types that have been reported in seven probands in seven publications (PMIDs: 8163685, 26199800, 37455866, 28888561, 10365365, 37380697, 10960490) are included in this curation. We report four probands with typical disease presentation and three probands with an atypical disease presentation. More evidence is available in the literature, but the maximum score for genetic evidence has been reached. The mechanism of pathogenicity is known to be loss of function. This gene-disease relationship is supported by tissue specific expression, patient expression, protein interaction, model, and rescue experimental evidence (Fagerberg et al., PMID:24309898; Martínez-Calle et al., PMID:31357031; Axelsson et al., PMID:35438610; Nesslein et al., PMID:15722377; Melton et al., PMID:12639841; Munis et al., PMID:33426150). Transcriptomics and antibody-based proteomics have shown SFTPB expression to be exclusive to lung tissue (Fagerberg et al., PMID:24309898). A proteomics assay showed a high level of association between SFTPB and interstitial lung abnormalities in a large cohort (N = 5,259) study (Axelsson et al., 2022, PMID:35438610). The Melton et al. doxycycline-regulated compound transgenic mouse model shows that SP-B is required for postnatal lung function and that levels of SP-B at or below 25% of normal expression leads to surfactant dysfunction, respiratory failure, and death (Melton et al., PMID:12639841). This experiment also showed the rescue of the respiratory failure phenotype in the model. The Munis et al. cell culture rescue experiment treated an SP-B deficient surfactant air-liquid interface cell culture model with simian immunodeficiency virus (SIV)-based lentiviral vector (LV) pseudotyped with Sendai virus glycoproteins F and HN expressing SP-B protein. The rSIV.F/HN*-expressing SPB corrected the disease phenotype in the model culture (Munis et al., PMID:33426150). Additional cell model and rescue experiments (not included in this curation) are present in the literature (Lin et al., PMID:10383422; Akinbi et al., PMID:9092492, Jacob et al., PMID:28965766). The maximum score for experimental evidence was exceeded in this curation. In summary, there is definitive evidence supporting the relationship between *SFTPB* and autosomal recessive surfactant metabolism dysfunction, pulmonary, 1. This has been repeatedly demonstrated in both the research and clinical diagnostic settings, and has been upheld over time. This classification was approved by the ClinGen Interstitial Lung Disease GCEP on the meeting date November 21, 2023 (SOP Version 9). This gene-disease pair was originally evaluated by the Interstitial Lung Disease (ILD) GCEP on October 17, 2024. It was reevaluated on December 16, 2025 by the ClinGen ILD GCEP in response to two reports of a single variant in heterozygosity segregating with pulmonary fibrosis and respiratory insufficiency in 6 families with variable penetrance and both early and later onset reported (PMIDs 39970392, 40479591). At this time however, there is insufficient evidence to support a change in the method of inheritance (MOI) or classification of the curated entity.
Clinical Genomic Database (CGD)
Manifestation: Pulmonary
Intervention: Pulmonary
Rationale: Lung transplant has been reported as effective in individuals with surfactant B deficiency, and without transplant, the disorder is typically fatal
ClinVar Associated Diseases & Phenotypes
Reported disease conditions connected to SFTPB variants in ClinVar
ClinVar Variants & Pathogenicity by Type
Statistics based on transcript NM_000542.5. Only rare variants are included.
We include only reliable ClinVar variants with their consequences to MANE Select, MANE Plus Clinical transcripts, or transcripts with TSL equal to 1. Click a count to filter the variants table below.
Slight differences between displayed counts and ClinVar may occur due to a different transcript/consequence chosen by our variant effect predictor, or because we classify Benign/Likely benign as Likely benign and Pathogenic/Likely pathogenic as Likely pathogenic.
| Effect | PathogenicP | Likely pathogenicLP | VUS | Likely benignLB | BenignB | Sum |
|---|---|---|---|---|---|---|
| synonymous | 1 | 2 | 40 | 2 | 45 | |
| missense | 2 | 5 | 86 | 19 | 1 | 113 |
| nonsense | 2 | 1 | 3 | |||
| start loss | 0 | |||||
| frameshift | 4 | 2 | 1 | 7 | ||
| splice donor/acceptor (+/-2bp) | 1 | 3 | 3 | 7 | ||
| Total | 10 | 11 | 92 | 59 | 3 | 175 |
Highest pathogenic variant AF is 0.0003495212
Transcript Catalog
Annotated transcript isoforms across RefSeq and Ensembl databases
| Transcript ID | Source | Protein ID | Coding Exons | MANE Status |
|---|---|---|---|---|
| RefSeq | NP_000533.4 | 10 | MANE Select | |
| Ensembl | ENSP00000428719.2 | 10 | MANE Select | |
| RefSeq | NP_001354210.1 | 9 | Standard | |
| RefSeq | NP_942140.3 | 10 | Standard |
Gene Ontology (GO) Annotations & Pathways
Biological processes, molecular functions, cellular components and pathways
Pathways ConsensusPathDB
- Surfactant metabolism
- Surfactant metabolism
- Metabolism of proteins
Biological Process
- sphingolipid metabolic process
- respiratory gaseous exchange
- animal organ morphogenesis
- cellular protein metabolic process
Cellular Component
- extracellular region
- extracellular space
- nucleoplasm
- lysosome
- multivesicular body
gnomAD Constraint
Source:
- Gene type
- protein_coding
- Transcript type
- protein_coding
- Transcript
- ENST00000393822
- Coding exons
- 10
- Length
- 11428
- Individuals with no LoFs
- 125664
- Homozygous LoFs
- 0
- Heterozygous LoFs
- 84
- Defined
- 125748
- p
- 0.000334
| Z-Score | Observed | Expected | Observed/Expected | Mutation Rate | Total Possible | |
|---|---|---|---|---|---|---|
| Missense | 0.597 | 202 | 227 | 0.889 | 0.0000134 | 2513 |
| Missense (PolyPhen) | 31 | 45.572 | 0.68024 | 578 | ||
| Synonymous | 0.489 | 94 | 100 | 0.938 | 0.00000659 | 785 |
| Loss of Function | 2.59 | 10 | 23.6 | 0.424 | 0.00000121 | 238 |
Population LoF Frequency
| Population | CAF | p-value | Status |
|---|---|---|---|
| African | 0.00019 | 0.00018 | rare |
| Latino/Admixed American | 0.00020 | 0.00020 | rare |
| Ashkenazi Jewish | 0.00030 | 0.00030 | rare |
| East Asian | 0.00011 | 0.00011 | rare |
| Finnish | 0 | 0.0 | absent |
| European (Non-Finnish) | 0.00056 | 0.00055 | rare |
| South Asian | 0.000098 | 0.000098 | rare |
| Other | 0.00049 | 0.00049 | rare |
dbNSFP Gene Annotations
Source:
- Function
- FUNCTION: Pulmonary surfactant-associated proteins promote alveolar stability by lowering the surface tension at the air- liquid interface in the peripheral air spaces. SP-B increases the collapse pressure of palmitic acid to nearly 70 millinewtons per meter.;
- Disease
- DISEASE: Pulmonary surfactant metabolism dysfunction 1 (SMDP1) [MIM:265120]: A rare lung disorder due to impaired surfactant homeostasis. It is characterized by alveolar filling with floccular material that stains positive using the periodic acid- Schiff method and is derived from surfactant phospholipids and protein components. Excessive lipoproteins accumulation in the alveoli results in severe respiratory distress. {ECO:0000269|PubMed:7491219}. Note=The disease is caused by mutations affecting the gene represented in this entry.; DISEASE: Respiratory distress syndrome in premature infants (RDS) [MIM:267450]: A lung disease affecting usually premature newborn infants. It is characterized by deficient gas exchange, diffuse atelectasis, high-permeability lung edema and fibrin-rich alveolar deposits called 'hyaline membranes'. {ECO:0000269|PubMed:11063734}. Note=Disease susceptibility may be associated with variations affecting the gene represented in this entry. A variation Ile to Thr at position 131 influences the association between specific alleles of SFTPA1 and respiratory distress syndrome in premature infants.;
Recessive Scores
- pRec
- 0.235
Intolerance Scores
- LoFtool
- 0.256
- RVIS EVS
- 0.71
- RVIS percentile EVS
- 85.68
Essentials
- Essential (CRISPR)
- N
- Essential (CRISPR2)
- N
- Indispensability pred.
- N
- Indispensability score
- 0.0878
Gene Damage Prediction
| All | Recessive | Dominant | |
|---|---|---|---|
| Mendelian | Medium | Medium | Medium |
| Primary Immunodeficiency | Medium | Medium | Medium |
| Cancer | Medium | Medium | Medium |