ALDH5A1

gene
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Also known as SSADHSSDH

Summary

ALDH5A1 (aldehyde dehydrogenase 5 family member A1, HGNC:408) is a protein-coding gene on chromosome 6p22.3, encoding Succinate-semialdehyde dehydrogenase, mitochondrial (P51649). Catalyzes one step in the degradation of the inhibitory neurotransmitter gamma-aminobutyric acid (GABA).

This protein belongs to the aldehyde dehydrogenase family of proteins. This gene encodes a mitochondrial NAD(+)-dependent succinic semialdehyde dehydrogenase. A deficiency of this enzyme, known as 4-hydroxybutyricaciduria, is a rare inborn error in the metabolism of the neurotransmitter 4-aminobutyric acid (GABA). In response to the defect, physiologic fluids from patients accumulate GHB, a compound with numerous neuromodulatory properties. Two transcript variants encoding distinct isoforms have been identified for this gene.

Source: NCBI Gene 7915 — RefSeq curated summary.

At a glance

  • Gene–disease (curated): succinic semialdehyde dehydrogenase deficiency (Definitive, ClinGen)
  • GWAS associations: 1
  • Clinical variants (ClinVar): 892 total — 83 pathogenic, 56 likely-pathogenic
  • Phenotypes (HPO): 40
  • Druggable target: yes
  • Dosage sensitivity (ClinGen): haploinsufficiency autosomal recessive, triplosensitivity no evidence
  • MANE Select transcript: NM_001080

Identifiers

Gene identifiers

FieldValue
HGNC IDHGNC:408
Approved symbolALDH5A1
Namealdehyde dehydrogenase 5 family member A1
Location6p22.3
Locus typegene with protein product
StatusApproved
AliasesSSADH, SSDH
Ensembl geneENSG00000112294
Ensembl biotypeprotein_coding
OMIM610045
Entrez7915

Gene structure

Transcript identifiers

Ensembl transcripts: 14 — 8 protein_coding, 3 retained_intron, 2 nonsense_mediated_decay, 1 protein_coding_CDS_not_defined

ENST00000348925, ENST00000357578, ENST00000479394, ENST00000491546, ENST00000492697, ENST00000672352, ENST00000672557, ENST00000672619, ENST00000672652, ENST00000675422, ENST00000859835, ENST00000859836, ENST00000859837, ENST00000859838

RefSeq mRNA: 3 — MANE Select: NM_001080 NM_001080, NM_001368954, NM_170740

CCDS: CCDS4555, CCDS4556

Canonical transcript exons

ENST00000357578 — 10 exons

ExonStartEnd
ENSE000006924632450252324502606
ENSE000006924642450326324503433
ENSE000006924652450486924504985
ENSE000006924672451516724515310
ENSE000006924692452276724522925
ENSE000009287952449496924495350
ENSE000009287992452040124520544
ENSE000012697362453350724537207
ENSE000035692132453211924532177
ENSE000036232452452799724528166

Expression profiles

Bgee: expression breadth ubiquitous, 273 present calls, max score 95.05.

FANTOM5 (CAGE): breadth ubiquitous, TPM avg 12.7029 / max 312.7727, expressed in 1366 samples.

FANTOM5 promoters (16 alternative TSS)

Promoter IDTPM avgSamples expressed
663886.29601183
663853.3167875
663870.9793464
663830.6627328
663860.6310365
663920.367458
663840.3051160
663960.042614
663970.032010
663930.02266

Top tissues by expression

292 total, by Bgee expression score (0-100, higher = more expressed):

TissueAnatomy IDExpression scoreQuality
skeletal muscle tissue of biceps brachiiUBERON:000450295.05gold quality
biceps brachiiUBERON:000150794.84gold quality
vastus lateralisUBERON:000137994.69gold quality
liverUBERON:000210794.13gold quality
quadriceps femorisUBERON:000137793.66gold quality
frontal poleUBERON:000279593.42gold quality
postcentral gyrusUBERON:000258193.39gold quality
Brodmann (1909) area 10UBERON:001354193.32gold quality
nucleus accumbensUBERON:000188293.05gold quality
superior frontal gyrusUBERON:000266192.91gold quality
CA1 field of hippocampusUBERON:000388192.90gold quality
paraflocculusUBERON:000535192.80gold quality
right lobe of liverUBERON:000111492.75gold quality
entorhinal cortexUBERON:000272892.65gold quality
caudate nucleusUBERON:000187392.58gold quality
middle frontal gyrusUBERON:000270292.50gold quality
skeletal muscle tissue of rectus abdominisUBERON:000451192.41gold quality
anterior cingulate cortexUBERON:000983592.35gold quality
parietal lobeUBERON:000187292.34gold quality
cingulate cortexUBERON:000302792.34gold quality
temporal lobeUBERON:000187192.17gold quality
amygdalaUBERON:000187692.09gold quality
superior vestibular nucleusUBERON:000722792.02gold quality
hypothalamusUBERON:000189891.81gold quality
skeletal muscle tissueUBERON:000113491.78gold quality
dorsolateral prefrontal cortexUBERON:000983491.50gold quality
putamenUBERON:000187491.48gold quality
telencephalonUBERON:000189391.30gold quality
Brodmann (1909) area 46UBERON:000648391.19gold quality
prefrontal cortexUBERON:000045191.08gold quality

Single-cell (SCXA)

Detected in 1 experiment(s), a significant marker in 1.

ExperimentMarker?Max mean expression
E-ANND-3yes8.66

Regulation

Is transcription factor: no

Upstream regulators (CollecTRI, top): E2F4, PITX2

miRNA regulators (miRDB)

141 targeting ALDH5A1, top 30 by miRDB confidence (max_score; target_count = how many genes the miRNA targets in total — lower means more specific):

miRNAMax scoreAvg scoremiRNA target_count
HSA-MIR-8485100.0077.574731
HSA-MIR-188-3P100.0068.761240
HSA-MIR-513A-5P100.0069.772465
HSA-MIR-3646100.0073.565283
HSA-MIR-5692A100.0074.406850
HSA-MIR-340-5P100.0072.504437
HSA-MIR-4425100.0067.591049
HSA-MIR-6873-3P100.0071.422626
HSA-MIR-3163100.0077.238605
HSA-MIR-6851-5P100.0065.631294
HSA-MIR-3689D100.0066.141181
HSA-MIR-4283100.0066.422097
HSA-MIR-1193100.0065.93529
HSA-MIR-366299.9973.825684
HSA-MIR-428299.9975.366408
HSA-MIR-118499.9968.191458
HSA-MIR-27A-3P99.9872.132955
HSA-MIR-27B-3P99.9872.132955
HSA-MIR-998599.9872.112939
HSA-MIR-56899.9869.862084
HSA-MIR-548AN99.9770.912817
HSA-MIR-548AJ-3P99.9673.385345
HSA-MIR-548X-3P99.9673.385345
HSA-MIR-570-3P99.9672.414910
HSA-MIR-128-3P99.9571.172484
HSA-MIR-216A-3P99.9571.192505
HSA-MIR-548J-3P99.9472.614881
HSA-MIR-9983-3P99.9471.483631
HSA-MIR-4760-3P99.9370.502385
HSA-MIR-548AE-3P99.9372.664867

Functional genomics

ClinGen dosage: haploinsufficiency 30 (autosomal recessive), triplosensitivity 0 (no evidence). ClinGen Gene Dosage Map

Literature-anchored findings (GeneRIF, showing 38)

  • High activity of this protein probably indicates disorders in lymphocyte energy state. (PMID:12629812)
  • Higher SSADH activity is associated with higher intelligence across the general population. (PMID:14981524)
  • The unexpected pattern of human SSADH polymorphism compared to interspecific findings outlines the possibility of a recent positive selection on some variants relevant to new cognitive capabilities unique to humans. (PMID:16786440)
  • Deficiency in humans causes ggamma-hydroxybutyric aciduria. (PMID:17457693)
  • within the 65-85 years age range, the T/T genotype is overrepresented in subjects with impaired cognitive function (PMID:18505418)
  • Redox-switch modulation of human SSADH by dynamic catalytic loop (PMID:19300440)
  • SSADH deficient patients have widespread reduction in benzodiazepine receptor (BZPR) binding, suggested by high endogenous brain GABA levels that downregulate GABA(A)-BZPR binding site availability. (PMID:19667317)
  • This study indicated that global disruption of cortical networks in SSADH KO mice, affecting both excitatory and inhibitory neurons. (PMID:20363598)
  • Study seeks to determine whether cerebellar abnormalities are present in human succinic semialdehyde dehydrogenase deficiency on volumetric MRI, compared with radiographic and histologic studies in the mouse model. (PMID:20445195)
  • the duplication (6)(p22.2) and corresponding hyperactive level of SSADH activity may have negative consequences for GABA metabolism (PMID:21438145)
  • our study identified a novel homozygous ALDH5A1 gene mutation associated with SSADH deficiency. (PMID:22437753)
  • Succinic semialdehyde dehydrognase deficiency is caused by a mutation of the Aldh5a1-gene resulting in a dysfunction of the enzyme succinic semialdehyde dehydrogenase–{REVIEW} (PMID:23516105)
  • Missense mutation in ALDH5A1 is associated with succinic semialdehyde dehydrogenase deficiency and severe intellectual disability. (PMID:23825041)
  • Missense mutations of c.527G>A and c.691G>A in the ALDH5A1 gene are associated with pathogenesis of succinic semialdehyde dehydrogenase deficiency. (PMID:23926001)
  • Results show that opioid-dependent patients carrying the T allele of a functional variant in ALDH5A1 had a greater risk of being nonresponders to methadone maintenance treatment (PMID:24230997)
  • The strongest association signal arose from an intronic region of the gene ALDH5A1, which encodes the mitochondrial enzyme succinic semialdehyde dehydrogenase (SSADH), an enzyme involved in gamma-aminobutyric acid metabolism. (PMID:24327614)
  • Two novel ALDH5A1 mutations likely responsible for SSADH deficiency were identified, and DNA sequencing provided an accurate diagnosis for an at-risk fetus whose sibling had SSADH deficiency. Current study and literature review identified nine additional novel mutations in eight unrelated families bringing the number of unique mutations of ALDH5A1 resulting in SSADH deficiency to 44, occurring from exon 1 to exon 10. (PMID:25431891)
  • Pearl et al. identify 3 new pathogenic mutations in the ALDH5A1 gene previously unreported in the literature. EXON: 1 Nucleotide change: c.412 C>T Change in protein: p.L138F EXON: 4 Nucleotide change: c.754G>T Change in protein: p.Q252X EXON: 8 Nucleotide change: c.1360G>A Change in protein: p.A454T (PMID:25558043)
  • SSADH catalytic loop role in the SSADH redox-switch modulation (PMID:26422261)
  • The proband was found to have compound heterozygous mutations of the succinate-semialdehyde dehydrogenase (ALDH5A1) gene, namely c.398_399delAA (p.N134X) and c.638G>T (p.R213L), for which her parents were both heterozygous carriers. (PMID:28186584)
  • ALDH5A1 mRNA expression was down-regulated in ovarian cancer patients compared with that in normal tissues. (PMID:28346042)
  • By ALDH5A1 gene expression in transiently transfected HEK293 cells and enzyme activity assays, we demonstrate that the p.V500 L mutation, despite being conservative, produces complete loss of enzyme activity (PMID:28664505)
  • ALDH5A1 nonsense mutation is associated with reduced Succinic semialdehyde dehydrogenase activity and stability resulting in Succinic semialdehyde dehydrogenase deficiency. (PMID:29895405)
  • Four Chinese patients (two males and two females) at the age of 86 days to 5 years were diagnosed with succinic semialdehyde dehydrogenase deficiency (SSADH deficiency) with aldehyde dehydrogenase family 5 member A1 (ALDH5A1) gene mutations. (PMID:31117962)
  • Novel mutations in a Chinese family with two patients with succinic semialdehyde dehydrogenase deficiency. (PMID:32223457)
  • Functional analysis of thirty-four suspected pathogenic missense variants in ALDH5A1 gene associated with succinic semialdehyde dehydrogenase deficiency. (PMID:32402538)
  • SSADH Variants Increase Susceptibility of U87 Cells to Mitochondrial Pro-Oxidant Insult. (PMID:32575506)
  • ALDH5A1 acts as a tumour promoter and has a prognostic impact in papillary thyroid carcinoma. (PMID:32881051)
  • Novel ALDH5A1 variants and genotype: Phenotype correlation in SSADH deficiency. (PMID:32887777)
  • Succinic Semialdehyde Dehydrogenase Deficiency: In Vitro and In Silico Characterization of a Novel Pathogenic Missense Variant and Analysis of the Mutational Spectrum of ALDH5A1. (PMID:33203024)
  • Gene expression analysis in epileptic hippocampi reveals a promoter haplotype conferring reduced aldehyde dehydrogenase 5a1 expression and responsiveness. (PMID:33319393)
  • Assessing Prevalence and Carrier Frequency of Succinic Semialdehyde Dehydrogenase Deficiency. (PMID:34882073)
  • Glioma Cells Expressing High Levels of ALDH5A1 Exhibit Enhanced Migration Transcriptional Signature in Patient Tumors. (PMID:36976494)
  • Phenotypic correlates of structural and functional protein impairments resultant from ALDH5A1 variants. (PMID:37962671)
  • ALDH5A1-deficient iPSC-derived excitatory and inhibitory neurons display cell type specific alterations. (PMID:38110041)
  • Clinical and molecular outcomes from the 5-Year natural history study of SSADH Deficiency, a model metabolic neurodevelopmental disorder. (PMID:38658850)
  • Functional Characterization of a Spectrum of Genetic Variants in a Family with Succinic Semialdehyde Dehydrogenase Deficiency. (PMID:38791277)
  • Clinical features and ALDH5A1 gene findings in 13 Chinese cases with succinic semialdehyde dehydrogenase deficiency. (PMID:38862963)

Cross-species orthologs

5 orthologs

OrganismSymbolGene ID
danio_rerioaldh5a1ENSDARG00000076544
mus_musculusAldh5a1ENSMUSG00000035936
rattus_norvegicusAldh5a1ENSRNOG00000023538
drosophila_melanogasterSsadhFBGN0039349
caenorhabditis_elegansWBGENE00000113

Paralogs (17): ALDH3B1 (ENSG00000006534), ALDH3A2 (ENSG00000072210), ALDH3A1 (ENSG00000108602), ALDH2 (ENSG00000111275), ALDH8A1 (ENSG00000118514), ALDH6A1 (ENSG00000119711), ALDH1A2 (ENSG00000128918), ALDH3B2 (ENSG00000132746), ALDH1L2 (ENSG00000136010), ALDH1B1 (ENSG00000137124), ALDH9A1 (ENSG00000143149), ALDH1L1 (ENSG00000144908), ALDH4A1 (ENSG00000159423), ALDH16A1 (ENSG00000161618), ALDH7A1 (ENSG00000164904), ALDH1A1 (ENSG00000165092), ALDH1A3 (ENSG00000184254)

Protein

Protein identifiers

Succinate-semialdehyde dehydrogenase, mitochondrialP51649 (reviewed: P51649)

Alternative names: Aldehyde dehydrogenase family 5 member A1, NAD(+)-dependent succinic semialdehyde dehydrogenase

All UniProt accessions (7): A0A5F9ZH05, A0A5F9ZH98, A0A5F9ZI23, C9J8Q5, P51649, X5D299, X5DQN2

UniProt curated annotations — full annotation on UniProt →

Function. Catalyzes one step in the degradation of the inhibitory neurotransmitter gamma-aminobutyric acid (GABA).

Subunit / interactions. Homotetramer.

Subcellular location. Mitochondrion.

Tissue specificity. Brain, pancreas, heart, liver, skeletal muscle and kidney. Lower in placenta.

Disease relevance. Succinic semialdehyde dehydrogenase deficiency (SSADHD) [MIM:271980] A rare inborn error of 4-aminobutyric acid (GABA) metabolism, which leads to accumulation of 4-hydroxybutyric acid in physiologic fluids of patients. The disease is clinically characterized by developmental delay, hypotonia, intellectual disability, ataxia, seizures, hyperkinetic behavior, aggression, and sleep disturbances. The disease is caused by variants affecting the gene represented in this entry.

Activity regulation. Redox-regulated. Inhibited under oxydizing conditions. Inhibited by hydrogen peroxide H(2)O(2).

Pathway. Amino-acid degradation; 4-aminobutanoate degradation.

Similarity. Belongs to the aldehyde dehydrogenase family.

Isoforms (2)

UniProt IDNamesCanonical?
P51649-11yes
P51649-22

RefSeq proteins (3): NP_001071, NP_001355883, NP_733936 (=MANE)

Domains & families (InterPro)

IDNameType
IPR010102Succ_semiAld_DHFamily
IPR015590Aldehyde_DH_domDomain
IPR016160Ald_DH_CS_CYSConserved_site
IPR016161Ald_DH/histidinol_DHHomologous_superfamily
IPR016162Ald_DH_NHomologous_superfamily
IPR016163Ald_DH_CHomologous_superfamily
IPR029510Ald_DH_CS_GLUConserved_site
IPR050740Aldehyde_DH_SuperfamilyFamily

Pfam: PF00171

Enzyme classification (BRENDA):

  • EC 1.2.1.24 — succinate-semialdehyde dehydrogenase (NAD+) (BRENDA: 32 organisms, 145 substrates, 80 inhibitors, 117 Km, 7 kcat entries)

Substrate kinetics (BRENDA)

27 substrates with measured Km, best-characterized 15. Km ranges are aggregated across organisms/conditions.

SubstrateKm (mM)Measurements
NAD+0.0025–12528
SUCCINATE SEMIALDEHYDE0.001–6.326
ACETALDEHYDE0.875–4.828
4-CARBOXYBENZALDEHYDE0.0121–0.16686
3-CARBOXYBENZALDEHYDE0.017–0.14184
NADP+0.552–4.44
BENZALDEHYDE0.019–0.2413
N-BUTANAL0.061–0.3233
N-HEXANAL0.0253–0.1073
N-PENTANAL0.0287–0.0963
PROPANAL1.212–1.6223
3-NITROBENZALDEHYDE0.0502–0.2872
4-NITROBENZALDEHYDE0.156–0.16122
ALPHA-KETOGLUTARIC SEMIALDEHYDE0.011–0.01592
N-OCTANAL0.0514–0.1372

Catalyzed reactions (Rhea), 1 shown:

  • succinate semialdehyde + NAD(+) + H2O = succinate + NADH + 2 H(+) (RHEA:13217)

UniProt features (93 total): strand 23, sequence variant 18, helix 18, modified residue 10, binding site 8, turn 5, mutagenesis site 4, active site 2, transit peptide 1, chain 1, site 1, disulfide bond 1, splice variant 1

Structure

Experimental structures (PDB)

5 structures.

PDBMethodResolution (Å)
2W8NX-RAY DIFFRACTION2
2W8PX-RAY DIFFRACTION2.3
2W8QX-RAY DIFFRACTION2.4
2W8RX-RAY DIFFRACTION2.4
2W8OX-RAY DIFFRACTION3.4

Predicted structure (AlphaFold)

ModelpLDDTFraction very-high
AF-P51649-F192.270.87

Functional residue map

Curated UniProt residues grouped by drug-discovery relevance — catalytic, ligand-binding, modification, and mutation-validated positions. Source: UniProtKB sequence features.

Catalytic / active sites (3): 205 (transition state stabilizer); 306 (proton acceptor); 340 (nucleophile)

Ligand- & substrate-binding residues (8): 438–440; 498; 202–204; 213; 228–231; 284–289; 306; 334

Post-translational modifications (10): 126, 126, 135, 184, 265, 265, 365, 402, 411, 499

Disulfide bonds (1): 340–342

Mutagenesis-validated functional residues (4):

PositionPhenotype
213reduces catalytic activity to less than 15% of wild-type.
334reduces catalytic activity to less than 15% of wild-type.
342loss of regulation by redox state.
498reduces catalytic activity to less than 15% of wild-type.

Function

Pathways and Gene Ontology

Reactome pathways

5 pathways

IDPathway
R-HSA-916853Degradation of GABA
R-HSA-112310Neurotransmitter release cycle
R-HSA-112315Transmission across Chemical Synapses
R-HSA-112316Neuronal System
R-HSA-888590GABA synthesis, release, reuptake and degradation

MSigDB gene sets: 269 (showing top): MODULE_172, MODULE_93, BUYTAERT_PHOTODYNAMIC_THERAPY_STRESS_DN, GOBP_ALPHA_AMINO_ACID_METABOLIC_PROCESS, GOBP_GLUTAMATE_METABOLIC_PROCESS, MITSIADES_RESPONSE_TO_APLIDIN_DN, LUCAS_HNF4A_TARGETS_UP, GOBP_GLUTAMINE_FAMILY_AMINO_ACID_METABOLIC_PROCESS, GOBP_MONOCARBOXYLIC_ACID_METABOLIC_PROCESS, GOBP_DICARBOXYLIC_ACID_METABOLIC_PROCESS, SHEDDEN_LUNG_CANCER_GOOD_SURVIVAL_A4, BILD_E2F3_ONCOGENIC_SIGNATURE, GOBP_ORGANIC_ACID_CATABOLIC_PROCESS, GOBP_ORGANIC_ACID_METABOLIC_PROCESS, GOBP_SMALL_MOLECULE_CATABOLIC_PROCESS

GO Biological Process (8): succinate metabolic process (GO:0006105), glutamate metabolic process (GO:0006536), central nervous system development (GO:0007417), GABA catabolic process (GO:0009450), post-embryonic development (GO:0009791), synaptic transmission, GABAergic (GO:0051932), obsolete GABA metabolic process (GO:0009448), carboxylic acid metabolic process (GO:0019752)

GO Molecular Function (5): succinate-semialdehyde dehydrogenase (NAD+) activity (GO:0004777), identical protein binding (GO:0042802), succinate-semialdehyde dehydrogenase [NAD(P)+] activity (GO:0009013), oxidoreductase activity (GO:0016491), oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor (GO:0016620)

GO Cellular Component (3): mitochondrion (GO:0005739), mitochondrial matrix (GO:0005759), synapse (GO:0045202)

Reactome top-level categories

Rollup of top-4 pathways:

CategoryPathways
GABA synthesis, release, reuptake and degradation1
Transmission across Chemical Synapses1
Neuronal System1
Neurotransmitter release cycle1

GO top-level categories

Rollup of top GO terms by namespace:

CategoryTerms
dicarboxylic acid metabolic process2
amino acid metabolic process1
nervous system development1
system development1
amino acid catabolic process1
non-proteinogenic amino acid catabolic process1
multicellular organism development1
multicellular organismal process1
chemical synaptic transmission1
oxoacid metabolic process1
succinate-semialdehyde dehydrogenase [NAD(P)+] activity1
protein binding1
oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor1
catalytic activity1
oxidoreductase activity, acting on the aldehyde or oxo group of donors1
cytoplasm1
intracellular membrane-bounded organelle1
mitochondrion1
intracellular organelle lumen1
cell junction1

Protein interactions and networks

STRING

4104 interactions, top by confidence (×1000):

Protein AProtein BPartner UniProtScore
ALDH5A1ABATP80404856
ALDH5A1GABRB2P47870822
ALDH5A1AKR7A2O43488719
ALDH5A1GAD1Q99259662
ALDH5A1ALDH18A1P54886607
ALDH5A1GLUD1P00367569
ALDH5A1GAD2Q05329567
ALDH5A1GLULP15104558
ALDH5A1GLUD2P49448527
ALDH5A1CSO75390519
ALDH5A1OATP04181513
ALDH5A1GPLD1P80108512
ALDH5A1OGDHQ02218505
ALDH5A1PGK1P00558484
ALDH5A1IDH2P48735482

IntAct

42 interactions, top by confidence:

ABTypeScore
FGL1LCMT2psi-mi:“MI:0914”(association)0.640
MRPL50GTPBP10psi-mi:“MI:0914”(association)0.530
GATCNME4psi-mi:“MI:0914”(association)0.530
MSRB2BLTP3Bpsi-mi:“MI:0914”(association)0.530
ALDH5A1ALDH5A1psi-mi:“MI:0407”(direct interaction)0.440
ALDH5A1MAGEA11psi-mi:“MI:0915”(physical association)0.370
ALDH5A1PCNApsi-mi:“MI:0915”(physical association)0.370
NFKB1NFKB1psi-mi:“MI:0914”(association)0.350
JUNpsi-mi:“MI:0914”(association)0.350
HSCBRBP5psi-mi:“MI:0914”(association)0.350
PRNPWDR91psi-mi:“MI:0914”(association)0.350
GLMPRTL8Cpsi-mi:“MI:0914”(association)0.350
OXLD1NUDT19psi-mi:“MI:0914”(association)0.350
FGL1DNM1Lpsi-mi:“MI:0914”(association)0.350
AP3B1psi-mi:“MI:0914”(association)0.350
Ppsi-mi:“MI:0914”(association)0.350
Mpsi-mi:“MI:0914”(association)0.350
DENND11psi-mi:“MI:0914”(association)0.350
NUDT19psi-mi:“MI:0914”(association)0.350
PRKD3NDUFA4psi-mi:“MI:0914”(association)0.350
IRAK4PRMT5psi-mi:“MI:0914”(association)0.350
KEAP1PTPRZ1psi-mi:“MI:0914”(association)0.350
MAPTSHTN1psi-mi:“MI:0914”(association)0.350
CEP135WDR91psi-mi:“MI:0914”(association)0.350
SRP54SRP19psi-mi:“MI:0914”(association)0.350

BioGRID (73): ALDH5A1 (Affinity Capture-MS), ALDH5A1 (Affinity Capture-MS), ADI1 (Co-fractionation), ALDH1B1 (Co-fractionation), ALDH5A1 (Co-fractionation), ALDH5A1 (Co-fractionation), ALDH5A1 (Co-fractionation), ALDH5A1 (Co-fractionation), ALDH5A1 (Co-fractionation), ARF5 (Co-fractionation), FH (Co-fractionation), SEC31A (Co-fractionation), SEC31B (Co-fractionation), ALDH5A1 (Affinity Capture-MS), ALDH5A1 (Affinity Capture-MS)

ESM2 similar proteins: A7YWE4, O74766, O75891, P07275, P0C2X9, P25795, P28037, P30038, P46562, P49419, P51649, P51650, P54889, P78568, P83401, Q02252, Q02253, Q07536, Q0WM29, Q141D3, Q1GV29, Q29HB2, Q2KJC9, Q2SKP1, Q3MSM3, Q3MSM4, Q3SY69, Q41247, Q54RA2, Q5RFM9, Q64057, Q6A2H0, Q6A2H1, Q6A2H2, Q6JQN1, Q7KW39, Q7QC84, Q7SY23, Q802W2, Q8BWF0

Diamond homologs: A0A2I7G3B0, A0B2F6, A0PN13, A0QMB9, A1KF54, A1UVS4, A2RWD6, A3MEC6, A3P6B0, A3PI00, A4WUY6, A5TYV9, A5VPA5, A6VEI4, A6W2P7, A6X2G8, A7FKL5, A9AN00, A9M9H7, B0CKN3, B1K708, B1Z033, B2SA42, B3PTE1, B4EHJ1, B5ZUG3, B9F3B6, B9JBA3, B9KNS6, C0RHQ3, C3MIE5, E1V7V8, O04895, O14293, O32507, O34660, O69497, O93344, O94788, P05091

SIGNOR signaling

2 interactions.

AEffectBMechanism
ALDH5A1“down-regulates quantity”4-oxobutanoate“chemical modification”
ALDH5A1“up-regulates quantity”succinate(2-)“chemical modification”

Disease & clinical

Clinical variants and AI predictions

ClinVar

892 variants total. Per-class counts are floors (≥ shown; pagination cap):

ClassificationCount (floor)
Pathogenic83
Likely pathogenic56
Uncertain significance331
Likely benign269
Benign71

Top pathogenic / likely-pathogenic (30)

Variant IDHGVSClassification
1069046NM_001080.3(ALDH5A1):c.1540C>T (p.Arg514Ter)Pathogenic
1070800NM_001080.3(ALDH5A1):c.318C>G (p.Tyr106Ter)Pathogenic
1070877NM_001080.3(ALDH5A1):c.854C>G (p.Ser285Ter)Pathogenic
1070905NM_001080.3(ALDH5A1):c.276del (p.Cys93fs)Pathogenic
1073790NM_001080.3(ALDH5A1):c.967_968dup (p.Gln323fs)Pathogenic
1075244NM_001080.3(ALDH5A1):c.34dup (p.Ala12fs)Pathogenic
1076224NC_000006.11:g.(?24505087)(24533940_?)delPathogenic
1299018NM_001080.3(ALDH5A1):c.503_518del (p.Ser168fs)Pathogenic
1346959NM_001080.3(ALDH5A1):c.1576G>T (p.Glu526Ter)Pathogenic
1350850NM_001080.3(ALDH5A1):c.424_425del (p.Ile142fs)Pathogenic
1355NM_001080.3(ALDH5A1):c.1343+1G>TPathogenic
1356NM_001080.3(ALDH5A1):c.727-3298G>APathogenic
1357NM_001080.3(ALDH5A1):c.612G>A (p.Trp204Ter)Pathogenic
1358NM_001080.3(ALDH5A1):c.1234C>T (p.Arg412Ter)Pathogenic
1358625NC_000006.11:g.(?24532327)(24533940_?)delPathogenic
1429807NM_001080.3(ALDH5A1):c.379_380del (p.Trp127fs)Pathogenic
1435168NM_001080.3(ALDH5A1):c.660_666del (p.Ala221fs)Pathogenic
1452396NM_001080.3(ALDH5A1):c.352A>T (p.Lys118Ter)Pathogenic
1452915NM_001080.3(ALDH5A1):c.1015-1G>CPathogenic
1691448NM_001080.3(ALDH5A1):c.728_736del (p.Leu243_Ser245del)Pathogenic
1810826NM_001080.3(ALDH5A1):c.698C>T (p.Thr233Met)Pathogenic
1878435NM_001080.3(ALDH5A1):c.278_298dup (p.Arg99_Ala100insGlyGlyValArgGluAlaArg)Pathogenic
1878439NM_001080.3(ALDH5A1):c.375_378del (p.Lys126fs)Pathogenic
1878441NM_001080.3(ALDH5A1):c.412C>T (p.Leu138Phe)Pathogenic
1878442NM_001080.3(ALDH5A1):c.416C>A (p.Ala139Asp)Pathogenic
1878444NM_001080.3(ALDH5A1):c.103_121del (p.Ser35fs)Pathogenic
1878445NM_001080.3(ALDH5A1):c.455_456dup (p.Ala153fs)Pathogenic
1878446NM_001080.3(ALDH5A1):c.461_474del (p.His154fs)Pathogenic
1878451NM_001080.3(ALDH5A1):c.559C>G (p.Arg187Gly)Pathogenic
1878452NM_001080.3(ALDH5A1):c.562del (p.Ala188fs)Pathogenic

SpliceAI

1575 predictions. Top by Δscore:

VariantEffectΔscore
6:24502517:TTGCA:Tacceptor_loss1.0000
6:24502518:TGCAG:Tacceptor_loss1.0000
6:24502519:GCA:Gacceptor_loss1.0000
6:24502520:CAGGA:Cacceptor_loss1.0000
6:24502605:GT:Gdonor_gain1.0000
6:24503431:CCGG:Cdonor_loss1.0000
6:24503434:G:GGdonor_gain1.0000
6:24503435:T:Adonor_loss1.0000
6:24504861:A:AGacceptor_gain1.0000
6:24504981:CTGAG:Cdonor_loss1.0000
6:24504982:TGAGG:Tdonor_loss1.0000
6:24504983:GAGGT:Gdonor_loss1.0000
6:24504984:AGG:Adonor_loss1.0000
6:24504985:GGT:Gdonor_loss1.0000
6:24504986:G:Tdonor_loss1.0000
6:24504987:T:Adonor_loss1.0000
6:24520396:CACAG:Cacceptor_loss1.0000
6:24520398:CAG:Cacceptor_loss1.0000
6:24520399:A:AGacceptor_gain1.0000
6:24520399:A:Cacceptor_loss1.0000
6:24520400:G:GGacceptor_gain1.0000
6:24520541:ACAGG:Adonor_loss1.0000
6:24520542:CAGG:Cdonor_loss1.0000
6:24520544:GGT:Gdonor_loss1.0000
6:24520545:G:Adonor_loss1.0000
6:24520546:T:Gdonor_loss1.0000
6:24522766:GACTT:Gacceptor_gain1.0000
6:24522923:AAGG:Adonor_loss1.0000
6:24522924:AGGTA:Adonor_loss1.0000
6:24522925:GGTA:Gdonor_loss1.0000

AlphaMissense

3445 scored. Top likely-pathogenic:

VariantProtein changeam_pathogenicity
6:24502547:T:AW127R0.995
6:24502547:T:CW127R0.995
6:24504897:G:CR213P0.995
6:24504881:A:CS208R0.994
6:24504883:T:AS208R0.994
6:24504883:T:GS208R0.994
6:24503281:G:CA153P0.993
6:24504912:C:AA218D0.993
6:24504906:G:AG216E0.990
6:24504905:G:AG216R0.989
6:24504905:G:CG216R0.989
6:24504918:C:AA220E0.989
6:24504928:T:GC223W0.988
6:24504943:G:CK228N0.988
6:24504943:G:TK228N0.988
6:24515284:T:CF282L0.988
6:24515286:T:AF282L0.988
6:24515286:T:GF282L0.988
6:24504924:G:TG222V0.987
6:24502528:G:CR120S0.986
6:24502528:G:TR120S0.986
6:24503342:G:CR173P0.986
6:24504905:G:TG216W0.986
6:24515281:T:CS281P0.986
6:24520405:T:CL292P0.986
6:24532120:T:CF449L0.986
6:24532122:C:AF449L0.986
6:24532122:C:GF449L0.986
6:24504874:T:AN205K0.985
6:24504874:T:GN205K0.985

dbSNP variants (sampled 300 via entrez): RS1000178666 (6:24530047 A>G), RS1000205418 (6:24507639 G>A), RS1000250698 (6:24530345 T>C), RS1000370319 (6:24494925 TCCCCGCGAC>T), RS1000457571 (6:24536529 G>A,C), RS1000470247 (6:24515002 A>G), RS1000481622 (6:24494187 T>C), RS1000657512 (6:24508077 T>C), RS1000688115 (6:24501406 G>C,T), RS1000697830 (6:24501571 G>T), RS1000732283 (6:24521924 T>C), RS1000842271 (6:24526449 T>A,G), RS1000865286 (6:24497503 T>C), RS1000946124 (6:24520017 A>G), RS1000949318 (6:24503127 A>C)

Disease associations

OMIM: gene MIM:610045 | disease phenotypes: MIM:271980, MIM:617468, MIM:208150

GenCC curated gene-disease

DiseaseClassificationInheritance
succinic semialdehyde dehydrogenase deficiencyDefinitiveAutosomal recessive

ClinGen Gene-Disease Validity (1)

Expert-panel classifications — Definitive > Strong > Moderate > Limited > Disputed > Refuted.

DiseaseClassificationInheritance
succinic semialdehyde dehydrogenase deficiencyDefinitiveAR

Mondo (5): succinic semialdehyde dehydrogenase deficiency (MONDO:0010083), prostate cancer (MONDO:0008315), intellectual disability (MONDO:0001071), arthrogryposis multiplex congenita (MONDO:0015168), fetal akinesia deformation sequence 1 (MONDO:0100101)

Orphanet (5): Succinic semialdehyde dehydrogenase deficiency (Orphanet:22), Familial prostate cancer (Orphanet:1331), Arthrogryposis multiplex congenita (Orphanet:1037), Fetal akinesia deformation sequence (Orphanet:994), NON RARE IN EUROPE: Unexplained intellectual disability (Orphanet:319658)

HPO phenotypes

40 total (30 of 40 shown, HPO-id order):

HPOTerm
HP:0000007Autosomal recessive inheritance
HP:0000496Abnormality of eye movement
HP:0000708Atypical behavior
HP:0000709Psychosis
HP:0000717Autism
HP:0000718Aggressive behavior
HP:0000738Hallucinations
HP:0000739Anxiety
HP:0000750Delayed speech and language development
HP:0000752Hyperactivity
HP:0001249Intellectual disability
HP:0001250Seizure
HP:0001251Ataxia
HP:0001252Hypotonia
HP:0001263Global developmental delay
HP:0001265Hyporeflexia
HP:0001270Motor delay
HP:0001272Cerebellar atrophy
HP:0001290Generalized hypotonia
HP:0001939Abnormality of metabolism/homeostasis
HP:0002069Bilateral tonic-clonic seizure
HP:0002121Generalized non-motor (absence) seizure
HP:0002123Generalized myoclonic seizure
HP:0002133Status epilepticus
HP:0002188Delayed CNS myelination
HP:0002353EEG abnormality
HP:0002487Hyperkinetic movements
HP:0003593Infantile onset
HP:0003621Juvenile onset
HP:0011462Young adult onset

GWAS associations

1 associations (top):

StudyTraitp-value
GCST001276_12Liver enzyme levels (alkaline phosphatase)6.000000e-26

EFO canonical traits (1, from GWAS)

EFO IDTrait name
EFO:0004533alkaline phosphatase measurement

MeSH disease descriptors (3)

DescriptorNameTree numbers
D008607Intellectual DisabilityC10.597.606.360; C23.888.592.604.646; F01.700.687; F03.625.539
D011471Prostatic NeoplasmsC04.588.945.440.770; C12.100.500.260.750; C12.100.500.565.625; C12.200.294.260.750; C12.200.294.565.625; C12.200.758.409.750; C12.900.619.750
C535803succinic semialdehyde dehydrogenase deficiency (supp.)

Drugs & pharmacology

Drug and pharmacology data

Is drug target: yes

ChEMBL targets (2): CHEMBL1911 (SINGLE PROTEIN), CHEMBL3542434 (PROTEIN FAMILY)

PharmGKB: 1 entry (VIP=true, CPIC=false)

PharmGKB clinical annotations

1 annotations.

VariantTypeLevelDrugsPhenotypes
rs2760118Efficacy3methadoneOpioid-Related Disorders

PharmGKB variants

2 variants.

VariantGenesLevelScore#Clin annotsDrugs
rs2760118ALDH5A133.001methadone
rs72552282ALDH5A10.000

GtoPdb / IUPHAR curated pharmacology

(IUPHAR/BPS Guide to Pharmacology — expert-curated)

Target class: enzyme — GABA turnover

Most potent curated ligand interactions (1 total), top 1:

LigandActionAffinityParameter
4-acryloylphenolInhibition6.46pIC50

ChEMBL bioactivities

1 potent at pChembl≥5 of 4 total, top 1 by pChembl (potency: 10 = 0.1 nM, 6 = 1 µM).

pChemblTypeValueUnitMolecule
6.46IC50350nMCHEMBL378577

PubChem BioAssay actives

1 with measured affinity, of 19 total; 1 most potent distinct compounds. Largely complementary to BindingDB; screening values are coarse (µM, 4 dp), so sub-nM hits tie at the floor.

CompoundAssayTypeValueUnit
1-(4-hydroxyphenyl)prop-2-en-1-one260087: Inhibitory activity against SSADHic500.3500uM

CTD chemical–gene interactions

59 total (human), top 30 by PubMed support.

ChemicalActions (top 5)PubMed papers
Benzo(a)pyreneaffects methylation, decreases expression4
sodium arsenitedecreases expression, affects cotreatment, increases abundance, increases expression3
Valproic Acidaffects cotreatment, decreases expression3
Cyclosporinedecreases expression3
Leflunomidedecreases expression2
Acetaminophenaffects expression, decreases expression2
Air Pollutantsdecreases expression2
Nickeldecreases expression2
Tretinoindecreases expression, increases expression2
Aflatoxin B1affects expression, decreases expression2
aristolochic acid Idecreases expression, increases expression1
bisphenol Fincreases expression1
beauvericinaffects cotreatment, decreases expression1
methylmercuric chloridedecreases expression1
triphenyl phosphateaffects expression1
bisphenol Aaffects expression1
senkirkinedecreases expression1
heliotrinedecreases expression1
tetrahydropalmatineincreases expression1
tris(1,3-dichloro-2-propyl)phosphatedecreases expression1
butyraldehydedecreases expression1
perfluorooctanoic acidincreases expression1
manganese chlorideaffects cotreatment, decreases expression, increases abundance1
nickel sulfateincreases expression1
n-butoxyacetaldehydeincreases oxidation1
di-n-butylphosphoric acidaffects expression1
CGP 52608affects binding, increases reaction1
enniatinsaffects cotreatment, decreases expression1
4-hydroxybutyric acidincreases abundance1
motexafin gadoliniumdecreases reaction, increases expression1

ChEMBL screening assays

5 unique, capped per target: 5 binding

Representative assays (with source publication via chembl_document):

Assay IDTypeDescriptionSource paper
CHEMBL2208565BindingInhibition of succinic semialdehyde dehydrogenase using succinic semialdehyde as substrate incubated up to 20 hrs prior to substrate addition measured after 30 mins by spectrophotometric analysis(1S, 3S)-3-amino-4-difluoromethylenyl-1-cyclopentanoic acid (CPP-115), a potent γ-aminobutyric acid aminotransferase inactivator for the treatment of cocaine addiction. — J Med Chem

Cellosaurus cell lines

8 cell lines: 6 induced pluripotent stem cell, 1 transformed cell line, 1 cancer cell line

First 10 cell lines (id-ordered, not curated):

CellosaurusNameCategorySex
CVCL_D6RVBCHi007-AInduced pluripotent stem cellFemale
CVCL_D6RWBCHi007-A-1Induced pluripotent stem cellFemale
CVCL_D6RXBCHi009-AInduced pluripotent stem cellMale
CVCL_D6RYBCHi009-A-1Induced pluripotent stem cellMale
CVCL_D6RZBCHi011-AInduced pluripotent stem cellMale
CVCL_D6S0BCHi011-A-1Induced pluripotent stem cellMale
CVCL_D6YXGM28820Transformed cell lineFemale
CVCL_E0VEUbigene Huh-7 ALDH5A1 KOCancer cell lineMale

Clinical trials (associated diseases)

300 trials via MONDO — disease-level, not drug-specific.

TrialPhaseStatusTitle
NCT00029224PHASE4COMPLETEDTreatment With Zoledronic Acid in Patients With Breast Cancer, Multiple Myeloma, and Prostate Cancer With Cancer Related Bone Lesions
NCT00035997PHASE4COMPLETEDOpen-label Trial on the Effect of I.V. Zoledronic Acid 4 mg on Bone Density in Hormone Sensitive Prostate Cancer Patients With Bone Metastasis
NCT00063609PHASE4COMPLETEDThe Effect of Zoledronic Acid on Bone Loss in Prostate Cancer Patients Undergoing Androgen Deprivation Therapy
NCT00103623PHASE4SUSPENDEDThe Plenaxis® Experience Study
NCT00106392PHASE4COMPLETEDA Safety and Efficacy Study of Prograf in the Prevention of Erectile Dysfunction After Radical Prostatectomy
NCT00185029PHASE4UNKNOWNMR-Lymphography and Lymph Node Staging in Prostate Cancer
NCT00199485PHASE4COMPLETEDAngelica Sinensis for the Treatment of Hot Flashes in Men Undergoing LHRH Therapy for Prostate Cancer
NCT00219219PHASE4COMPLETEDZoledronic Acid in the Prevention of Skeletal-related Events in Hormone Refractory and Hormone-sensitive Prostate Cancer Patients With Bone Metastases
NCT00219271PHASE4COMPLETEDEffect Of Zoledronic Acid On Circulating And Bone Marrow-Residing Prostate Cancer Cells In Patients With Clinically Localized Prostate Cancer
NCT00237146PHASE4COMPLETEDStudy to Evaluate Zoledronic Acid on Quality of Life and Skeletal-related Events as Adjuvant Treatment in Patients With Hormone-naïve Prostate Cancer and Bone Metastasis Who Have Undergone Orchiectomy
NCT00242554PHASE4COMPLETEDOpen-label Phase IV Clinical Trial to Evaluate the Safety and Tolerability of Zoledronic Acid in Patients With Prostate Cancer and Bone Metastases
NCT00280098PHASE4COMPLETEDDocetaxel in the Treatment of Hormone Refractory Prostate Cancer
NCT00293696PHASE4COMPLETEDCasodex/Zoladex Biomarkers in Localised Prostate Cancer
NCT00334139PHASE4COMPLETEDEffect of Zoledronic Acid on Bone Metabolism in Patients With Bone Metastasis and Prostate or Breast Cancer
NCT00375765PHASE4COMPLETEDEffects On Dihydrotestosterone Regulated Gene Expression In Benign Prostatic Hyperplasia Or Prostate Cancer
NCT00391690PHASE4COMPLETEDEvaluation of Bone Markers as Diagnostic Tools for Early Detection of Bone Metastases in Patients With High Risk Prostate Cancer
NCT00422708PHASE4COMPLETEDLocal Anesthesia for Prostate Biopsy
NCT00526331PHASE4COMPLETEDEvaluation of Arterial Pressure Based Cardiac Output for Goal-Directed Perioperative Therapy
NCT00590213PHASE4COMPLETEDCompare the Value of Prophylactic Versus Therapeutic Breast Radiotherapy in CASODEX
NCT00629330PHASE4TERMINATEDDissemination of Prostate Cancer Screening to PCP’s in African American Communities
NCT00771966PHASE4COMPLETEDRadical Prostatectomy and Perioperative Fluid Therapy
NCT00805701PHASE4COMPLETEDStudy Assessing The Efficacy And Safety Of Avodart (Dutasteride) At Improving Urinary Symptoms In Men With Prostate Cancer Who Are Undergoing Seed Implantation
NCT00859027PHASE4COMPLETEDEffect Of Risedronate On Bone Mass In Older Men Receiving Neoadjuvant Therapy For Prostate Cancer
NCT00906269PHASE4UNKNOWNCan Hyperbaric Oxygen Improve Erectile Function Following Surgery for Prostate Cancer
NCT00953277PHASE4COMPLETEDStudy of Nerve Reconstruction Using AVANCE in Subjects Who Undergo Robotic Assisted Prostatectomy for Treatment of Prostate Cancer
NCT00982800PHASE4COMPLETEDDoes Postoperative Gabapentin Reduce Pain, Opioid Consumption and Anxiety and Have a Positive Effect on Health Related Quality of Life After Radical Prostatectomy?
NCT01083199PHASE4COMPLETEDGlobal Performance Evaluation of the AMS CONTINUUM™ Device
NCT01136226PHASE4COMPLETEDEvaluate Recovery of Testosterone for Patients Using Eligard
NCT01161563PHASE4COMPLETEDRandomized Crossover Trial to Assess the Tolerability of Gonadotropin Releasing Hormone (GnRH) Analogue Administration
NCT01230905PHASE4COMPLETEDStudy to Monitor the Effects of Androgen Suppression Treatment on the Heart
NCT01296672PHASE4COMPLETED3 Month Finasteride Challenge Test Can Significantly Improve the Performance of Screening for Prostate Cancer
NCT01365143PHASE4TERMINATEDProspective Randomized Trial Comparing Robotic Versus Open Radical Prostatectomy
NCT01379742PHASE4UNKNOWNComparison of Between ThinSeed™ and OncoSeed™ for Permanent Prostate Brachytherapy
NCT01486563PHASE4COMPLETEDHydroxyethyl Starch and Renal Function After Radical Prostatectomy
NCT01511874PHASE4COMPLETEDEfficacy and Safety Study of ELIGARD 22.5mg With Prostate Cancer
NCT01512472PHASE4TERMINATEDFirmagon (Degarelix) Intermittent Therapy
NCT01547416PHASE4COMPLETEDThe Effect of Combined General/Epidural Anesthesia Versus General Anesthesia on Diaphragmatic Function
NCT01571544PHASE4COMPLETEDThe Use of Thermal Suits as Preventing Hypothermia During Surgery
NCT01581749PHASE4UNKNOWNEvaluation of Truebeam for Low-Intermediate Risk Prostate Cancer
NCT01649635PHASE4COMPLETEDStudy of Cabazitaxel Combined With Prednisone and Prophylaxis of Neutropenia Complications in the Treatment of Patients With Metastatic Castration-resistant Prostate Cancer