MPST
protein-codingmercaptopyruvate sulfurtransferase
Gene summary
This protein encoded by this gene catalyzes the transfer of a sulfur ion from 3-mercaptopyruvate to cyanide or other thiol compounds. It may be involved in cysteine degradation and cyanide detoxification. There is confusion in literature between this protein (mercaptopyruvate sulfurtransferase, MPST), which appears to be cytoplasmic, and thiosulfate sulfurtransferase (rhodanese, TST, GeneID:7263), which is a mitochondrial protein. Deficiency in MPST activity has been implicated in a rare inheritable disorder known as mercaptolactate-cysteine disulfiduria (MCDU). Alternatively spliced transcript variants encoding same or different isoforms have been identified for this gene. [provided by RefSeq, Jul 2008]
MANE transcript
Inheritance
ClinVar variants
Top phenotype
gnomAD constraint
Max pathogenic AF
Genomic locus
External References & Databases
Transcript & Mutation Effects
hg38 • Region Span ~10.2 kbGenCC Phenotypes & Disease Associations
Curated gene-disease validity assertions and inheritance patterns
Inheritance Pattern: AR
Disease ID:MONDO:0009585
Submitter: ClinGen
The gene *MPST* encodes mercaptopyruvate sulfurtransferase, an enzyme that catalyzes the desulfuration of 3-mercaptopyruvate to generate enzyme bound persulfide and pyruvate. MPST also catalyzes the transfer of sulfur atoms from the persulfide to proteins and small thiol molecule acceptors. A deficiency in MPST enzymatic activity has been identified in relation to mercaptolactate-cysteine disulfiduria (MCDU), a rare autosomal recessive metabolic disorder originally associated with intellectual disability in 1968 by Crawhall et al. (PMID:5644041). Since then, several phenotypically normal individuals and individuals with intellectual disability have been identified with MCDU (PMIDs:4690911, 6945862). However, to date no individuals have been identified with biallelic variants in MPST resulting in MCDU or a deficiency in MPST enzymatic activity. One individual carrying a nonsense variant in the heterozygous state, which results in null enzymatic activity in yeast, displayed a normal MPST phenotype (PMID:16545926). Support for a potential gene-disease relationship comes from the biochemical function of MPST (PMID:33055309), which normally functions to convert cysteine-derived 3-mercaptopyruvate (3MP) to pyruvate, but when absent causes 3- mercaptopyruvate to be converted to 3-mercaptolactate (3ML). Individuals with urinary accumulations of 3ML were originally associated with MPST deficiency and MCDU. Additionally, a knock out MPST (-/-) mouse model demonstrated that KO mice were phenotypically normal besides elevated urinary mercaptolactate excretion and elevated passive systemic anaphylactic responses (PMID: 32012740). In summary, there is insufficient genetic evidence to support a gene-disease relationship. A classification of No Known Disease Relationship was approved by the General IEM GCEP on 04/28/2023.
ClinVar Associated Diseases & Phenotypes
Reported disease conditions connected to MPST variants in ClinVar
ClinVar Variants & Pathogenicity by Type
Statistics based on transcript NM_021126.8. 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 | 1 | ||||
| missense | 53 | 2 | 55 | |||
| nonsense | 0 | |||||
| start loss | 0 | |||||
| frameshift | 0 | |||||
| splice donor/acceptor (+/-2bp) | 0 | |||||
| Total | 0 | 0 | 54 | 2 | 0 | 56 |
Transcript Catalog
Annotated transcript isoforms across RefSeq and Ensembl databases
| Transcript ID | Source | Protein ID | Coding Exons | MANE Status |
|---|---|---|---|---|
| RefSeq | NP_066949.2 | 3 | MANE Select | |
| Ensembl | ENSP00000411719.3 | 3 | MANE Select | |
| RefSeq | NP_001013454.1 | 2 | Standard | |
| RefSeq | NP_001123989.1 | 2 | Standard |
Gene Ontology (GO) Annotations & Pathways
Biological processes, molecular functions, cellular components and pathways
Pathways ConsensusPathDB
- Sulfur relay system - Homo sapiens (human)
- Cysteine and methionine metabolism - Homo sapiens (human)
- Sulfur metabolism - Homo sapiens (human)
- Beta-mercaptolactate-cysteine disulfiduria
- Cysteine Metabolism
Biological Process
- sulfur amino acid catabolic process
- kidney development
- liver development
- cyanate catabolic process
- response to toxic substance
Molecular Function
- thiosulfate sulfurtransferase activity
- 3-mercaptopyruvate sulfurtransferase activity
- identical protein binding
Cellular Component
- mitochondrial matrix
- cytosol
- cell junction
- neuron projection
- synapse
gnomAD Constraint
Source:
- Gene type
- protein_coding
- Transcript type
- protein_coding
- Transcript
- ENST00000397129
- Coding exons
- 3
- Length
- 10188
- Individuals with no LoFs
- 125688
- Homozygous LoFs
- 0
- Heterozygous LoFs
- 24
- Defined
- 125712
- p
- 0.0000955
| Z-Score | Observed | Expected | Observed/Expected | Mutation Rate | Total Possible | |
|---|---|---|---|---|---|---|
| Missense | 1.21 | 153 | 201 | 0.760 | 0.0000147 | 1983 |
| Missense (PolyPhen) | 40 | 56.56 | 0.70721 | 610 | ||
| Synonymous | 2.28 | 69 | 97.6 | 0.707 | 0.00000831 | 654 |
| Loss of Function | 0.769 | 8 | 10.7 | 0.746 | 6.99e-7 | 106 |
Population LoF Frequency
| Population | CAF | p-value | Status |
|---|---|---|---|
| African | 0 | 0.0 | absent |
| Latino/Admixed American | 0.00015 | 0.00014 | rare |
| Ashkenazi Jewish | 0.000099 | 0.000099 | rare |
| East Asian | 0.000059 | 0.000054 | rare |
| Finnish | 0 | 0.0 | absent |
| European (Non-Finnish) | 0.00013 | 0.00012 | rare |
| South Asian | 0.000065 | 0.000065 | rare |
| Other | 0.00017 | 0.00016 | rare |
dbNSFP Gene Annotations
Source:
- Function
- FUNCTION: Transfer of a sulfur ion to cyanide or to other thiol compounds. Also has weak rhodanese activity. Detoxifies cyanide and is required for thiosulfate biosynthesis. Acts as an antioxidant. In combination with cysteine aminotransferase (CAT), contributes to the catabolism of cysteine and is an important producer of hydrogen sulfide in the brain, retina and vascular endothelial cells. Hydrogen sulfide H(2)S is an important synaptic modulator, signaling molecule, smooth muscle contractor and neuroprotectant. Its production by the 3MST/CAT pathway is regulated by calcium ions. {ECO:0000250|UniProtKB:P97532}.;
- Disease
- DISEASE: Note=Aberrant MPST activity is found in a few cases of mercaptolactate-cysteine disulfiduria (MCDU) characterized by the appearance of large quantaties of the sulfur-containing amino acid, beta-mercaptolactate-cysteine disulfide, in the urine (PubMed:4973015, PubMed:4690911 and PubMed:6945862). Some cases have associated mental retardation (PubMed:4973015 and PubMed:6945862).;
Essentials
- Essential (CRISPR)
- N
- Essential (CRISPR2)
- N
- Essential (gene trap)
- N
- Indispensability pred.
- E
- Indispensability score
- 0.749
Gene Damage Prediction
| All | Recessive | Dominant | |
|---|---|---|---|
| Mendelian | Medium | Medium | Medium |
| Primary Immunodeficiency | Medium | Medium | Medium |
| Cancer | Medium | Medium | Medium |