MLST8

protein-coding

MTOR associated protein, LST8 homolog, the group of WD repeat domain containing|MTOR complex 1|MTOR complex 2

Gene summary

Enables protein serine/threonine kinase activator activity and protein-macromolecule adaptor activity. Contributes to protein serine/threonine kinase activity. Involved in TOR signaling; positive regulation of TOR signaling; and regulation of actin cytoskeleton organization. Part of TORC1 complex and TORC2 complex. [provided by Alliance of Genome Resources, Jun 2026]

MANE transcript

NM_022372.6

Inheritance

—

ClinVar variants

U:40B:3

Top phenotype

—

gnomAD constraint

pLI —, LoF o/e 0.36

Max pathogenic AF

—

Genomic locus

chr16:2,204,248-2,209,453

External References & Databases

Transcript & Mutation Effects

hg38 • Region Span ~5.2 kb
Loading mutation effect viewer...

GenCC Phenotypes & Disease Associations

Curated gene-disease validity assertions and inheritance patterns

No GenCC data available for this gene.

ClinVar Associated Diseases & Phenotypes

Reported disease conditions connected to MLST8 variants in ClinVar

2 Conditions Cataloged
not specifiedTotal: 38
not providedTotal: 1

ClinVar Variants & Pathogenicity by Type

Statistics based on transcript NM_022372.6. 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.

EffectPLPVUSLBBSum
synonymous
1
clinvar
3
clinvar
4
missense
36
clinvar
36
nonsense
0
start loss
0
frameshift
0
splice donor/acceptor (+/-2bp)
3
clinvar
3
Total00403043
Loading ClinVar variants...

Transcript Catalog

Annotated transcript isoforms across RefSeq and Ensembl databases

Showing 4 of 116 transcripts
Transcript IDSourceProtein IDCoding ExonsMANE Status
NM_022372.6RefSeqNP_071767.38MANE Select
ENST00000569417.6EnsemblENSP00000456405.18MANE Select
NM_001199173.3RefSeqNP_001186102.18Standard
NM_001199174.3RefSeqNP_001186103.18Standard

Gene Ontology (GO) Annotations & Pathways

Biological processes, molecular functions, cellular components and pathways

Pathways ConsensusPathDB

  • PI3K-Akt signaling pathway - Homo sapiens (human)
  • mTOR signaling pathway - Homo sapiens (human)
  • Autophagy - animal - Homo sapiens (human)
  • Autophagy - other - Homo sapiens (human)
  • Thermogenesis - Homo sapiens (human)

Biological Process

  • cell cycle arrest
  • regulation of macroautophagy
  • positive regulation of actin filament polymerization
  • TOR signaling
  • positive regulation of TOR signaling

Molecular Function

  • protein binding
  • protein serine/threonine kinase activator activity

Cellular Component

  • nucleoplasm
  • cytoplasm
  • cytosol
  • TORC1 complex
  • TORC2 complex

gnomAD Constraint

Source: gnomAD

Gene type
protein_coding
Transcript type
protein_coding
Transcript
ENST00000569417
Coding exons
8
Length
5169
Individuals with no LoFs
124784
Homozygous LoFs
0
Heterozygous LoFs
29
Defined
124813
p
0.000116
Z-ScoreObservedExpectedObserved/ExpectedMutation RateTotal Possible
Missense1.381652230.7390.00001482162
Missense (PolyPhen)5075.7840.65977731
Synonymous-3.2014099.41.410.00000794615
Loss of Function2.64719.60.3570.00000111173

Population LoF Frequency

PopulationCAFp-valueStatus
African00.0absent
Latino/Admixed American00.0absent
Ashkenazi Jewish0.000100.000099rare
East Asian0.000170.00017rare
Finnish0.000340.00032rare
European (Non-Finnish)0.000140.00014rare
South Asian0.0000650.000065rare
Other00.0absent

dbNSFP Gene Annotations

Source: dbNSFP

Function
FUNCTION: Subunit of both mTORC1 and mTORC2, which regulates cell growth and survival in response to nutrient and hormonal signals. mTORC1 is activated in response to growth factors or amino acids. Growth factor-stimulated mTORC1 activation involves a AKT1- mediated phosphorylation of TSC1-TSC2, which leads to the activation of the RHEB GTPase that potently activates the protein kinase activity of mTORC1. Amino acid-signaling to mTORC1 requires its relocalization to the lysosomes mediated by the Ragulator complex and the Rag GTPases. Activated mTORC1 up-regulates protein synthesis by phosphorylating key regulators of mRNA translation and ribosome synthesis. mTORC1 phosphorylates EIF4EBP1 and releases it from inhibiting the elongation initiation factor 4E (eiF4E). mTORC1 phosphorylates and activates S6K1 at 'Thr-389', which then promotes protein synthesis by phosphorylating PDCD4 and targeting it for degradation. Within mTORC1, LST8 interacts directly with MTOR and enhances its kinase activity. In nutrient- poor conditions, stabilizes the MTOR-RPTOR interaction and favors RPTOR-mediated inhibition of MTOR activity. mTORC2 is also activated by growth factors, but seems to be nutrient-insensitive. mTORC2 seems to function upstream of Rho GTPases to regulate the actin cytoskeleton, probably by activating one or more Rho-type guanine nucleotide exchange factors. mTORC2 promotes the serum- induced formation of stress-fibers or F-actin. mTORC2 plays a critical role in AKT1 'Ser-473' phosphorylation, which may facilitate the phosphorylation of the activation loop of AKT1 on 'Thr-308' by PDK1 which is a prerequisite for full activation. mTORC2 regulates the phosphorylation of SGK1 at 'Ser-422'. mTORC2 also modulates the phosphorylation of PRKCA on 'Ser-657'. {ECO:0000269|PubMed:12718876, ECO:0000269|PubMed:15467718}.;

Intolerance Scores

LoFtool
0.429
RVIS EVS
-0.45
RVIS percentile EVS
24.19

Essentials

Essential (CRISPR)
N
Essential (CRISPR2)
E
Essential (gene trap)
N
Indispensability pred.
E
Indispensability score
0.848

Gene Damage Prediction

AllRecessiveDominant
MendelianMediumMediumMedium
Primary ImmunodeficiencyMediumMediumMedium
CancerMediumMediumMedium
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