Human Gene ALDH4A1 (ENST00000375341.8) from GENCODE V49
  Description: aldehyde dehydrogenase 4 family member A1, transcript variant P5CDhL (from RefSeq NM_003748.4)
Gencode Transcript: ENST00000375341.8
Gencode Gene: ENSG00000159423.18
Transcript (Including UTRs)
   Position: hg38 chr1:18,871,430-18,902,555 Size: 31,126 Total Exon Count: 15 Strand: -
Coding Region
   Position: hg38 chr1:18,872,845-18,902,523 Size: 29,679 Coding Exon Count: 15 

Page IndexSequence and LinksUniProtKB CommentsPrimersMalaCardsCTD
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsPathwaysOther NamesMethods
Data last updated at UCSC: 2025-09-17 13:57:07

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr1:18,871,430-18,902,555)mRNA (may differ from genome)Protein (563 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGencodeGeneCards
HGNCLynxMalacardsMGIOMIMPubMed
ReactomeUniProtKBWikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: AL4A1_HUMAN
DESCRIPTION: RecName: Full=Delta-1-pyrroline-5-carboxylate dehydrogenase, mitochondrial; Short=P5C dehydrogenase; EC=1.5.1.12; AltName: Full=Aldehyde dehydrogenase family 4 member A1; Flags: Precursor;
FUNCTION: Irreversible conversion of delta-1-pyrroline-5- carboxylate (P5C), derived either from proline or ornithine, to glutamate. This is a necessary step in the pathway interconnecting the urea and tricarboxylic acid cycles. The preferred substrate is glutamic gamma-semialdehyde, other substrates include succinic, glutaric and adipic semialdehydes.
CATALYTIC ACTIVITY: (S)-1-pyrroline-5-carboxylate + NAD(P)(+) + 2 H(2)O = L-glutamate + NAD(P)H.
BIOPHYSICOCHEMICAL PROPERTIES: Kinetic parameters: KM=100 uM for NAD; KM=32 uM for L-pyrroline-5-carboxylate;
PATHWAY: Amino-acid degradation; L-proline degradation into L- glutamate; L-glutamate from L-proline: step 2/2.
SUBUNIT: Homodimer.
INTERACTION: Self; NbExp=2; IntAct=EBI-3926971, EBI-3926971;
SUBCELLULAR LOCATION: Mitochondrion matrix.
TISSUE SPECIFICITY: Highest expression is found in liver followed by skeletal muscle, kidney, heart, brain, placenta, lung and pancreas.
DISEASE: Defects in ALDH4A1 are the cause of hyperprolinemia type 2 (HP-2) [MIM:239510]. HP-2 is characterized by the accumulation of delta-1-pyrroline-5-carboxylate (P5C) and proline. The disorder may be causally related to neurologic manifestations, including seizures and mental retardation.
SIMILARITY: Belongs to the aldehyde dehydrogenase family.
WEB RESOURCE: Name=GeneReviews; URL="http://www.ncbi.nlm.nih.gov/sites/GeneTests/lab/gene/ALDH4A1";

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  MalaCards Disease Associations
  MalaCards Gene Search: ALDH4A1
Diseases sorted by gene-association score: hyperprolinemia, type ii* (1672), hyperprolinemia (34), succinic semialdehyde dehydrogenase deficiency (14), hypophosphatasia, infantile (6), gamma-amino butyric acid metabolism disorder (6)
* = Manually curated disease association

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 202.16 RPKM in Liver
Total median expression: 931.76 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -4.0032-0.125 Picture PostScript Text
3' UTR -601.401415-0.425 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR005931 - 1-pyrroline-5-COlate_DH
IPR016161 - Ald_DH/histidinol_DH
IPR016163 - Ald_DH_C
IPR016160 - Ald_DH_CS
IPR016162 - Ald_DH_N
IPR015590 - Aldehyde_DH_dom

Pfam Domains:
PF00171 - Aldehyde dehydrogenase family

Protein Data Bank (PDB) 3-D Structure
MuPIT help
3V9G - X-ray MuPIT 3V9H - X-ray MuPIT 3V9I - X-ray MuPIT


ModBase Predicted Comparative 3D Structure on P30038
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The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
Genome BrowserGenome BrowserGenome BrowserGenome BrowserNo orthologGenome Browser
Gene Details    Gene Details
Gene Sorter    Gene Sorter
MGIRGDEnsemblEnsembl SGD
Protein SequenceProtein SequenceProtein SequenceProtein Sequence Protein Sequence
AlignmentAlignmentAlignmentAlignment Alignment

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0003842 1-pyrroline-5-carboxylate dehydrogenase activity
GO:0004029 aldehyde dehydrogenase (NAD) activity
GO:0009055 electron carrier activity
GO:0016491 oxidoreductase activity
GO:0016620 oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor
GO:0042802 identical protein binding

Biological Process:
GO:0006560 proline metabolic process
GO:0006562 proline catabolic process
GO:0008152 metabolic process
GO:0010133 proline catabolic process to glutamate
GO:0019470 4-hydroxyproline catabolic process
GO:0022900 electron transport chain
GO:0046487 glyoxylate metabolic process
GO:0055114 oxidation-reduction process

Cellular Component:
GO:0005739 mitochondrion
GO:0005759 mitochondrial matrix


-  Descriptions from all associated GenBank mRNAs
  BX649081 - Homo sapiens mRNA; cDNA DKFZp779M035 (from clone DKFZp779M035).
BC007581 - Homo sapiens aldehyde dehydrogenase 4 family, member A1, mRNA (cDNA clone MGC:15564 IMAGE:3139944), complete cds.
BC023600 - Homo sapiens aldehyde dehydrogenase 4 family, member A1, mRNA (cDNA clone MGC:23086 IMAGE:4548787), complete cds.
FJ462711 - Homo sapiens mitochondrial aldehyde dehydrogenase 4 family member A1 transcript variant ALDH4A1_v6 (ALDH4A1) mRNA, complete cds; nuclear gene for mitochondrial product.
U24266 - Human pyrroline-5-carboxylate dehydrogenase (P5CDh) mRNA, long form, complete cds.
U24267 - Human pyrroline-5-carboxylate dehydrogenase (P5CDh) mRNA, short form, complete cds.
AK222486 - Homo sapiens mRNA for aldehyde dehydrogenase 4A1 precursor variant, clone: adKA03036.
AK294552 - Homo sapiens cDNA FLJ54479 complete cds, highly similar to Delta-1-pyrroline-5-carboxylatedehydrogenase, mitochondrial precursor (EC 1.5.1.12).
AK289972 - Homo sapiens cDNA FLJ75077 complete cds, highly similar to Homo sapiens aldehyde dehydrogenase 4 family, member A1, transcript variant P5CDhL, mRNA.
GQ891378 - Homo sapiens clone HEL-S-173n epididymis secretory sperm binding protein mRNA, complete cds.
KJ897887 - Synthetic construct Homo sapiens clone ccsbBroadEn_07281 ALDH4A1 gene, encodes complete protein.
KR710110 - Synthetic construct Homo sapiens clone CCSBHm_00009766 ALDH4A1 (ALDH4A1) mRNA, encodes complete protein.
DQ893505 - Synthetic construct clone IMAGE:100006135; FLH194803.01X; RZPDo839F0380D aldehyde dehydrogenase 4 family, member A1 (ALDH4A1) gene, encodes complete protein.
DQ896489 - Synthetic construct Homo sapiens clone IMAGE:100010949; FLH194799.01L; RZPDo839F0370D aldehyde dehydrogenase 4 family, member A1 (ALDH4A1) gene, encodes complete protein.
AB587364 - Synthetic construct DNA, clone: pF1KB3033, Homo sapiens ALDH4A1 gene for aldehyde dehydrogenase 4 family, member A1, without stop codon, in Flexi system.
JD518414 - Sequence 499438 from Patent EP1572962.
JD546366 - Sequence 527390 from Patent EP1572962.
JD488470 - Sequence 469494 from Patent EP1572962.
JD182905 - Sequence 163929 from Patent EP1572962.
JD502698 - Sequence 483722 from Patent EP1572962.
JD369507 - Sequence 350531 from Patent EP1572962.
JD133082 - Sequence 114106 from Patent EP1572962.
JD150632 - Sequence 131656 from Patent EP1572962.
JD058478 - Sequence 39502 from Patent EP1572962.
JD248675 - Sequence 229699 from Patent EP1572962.
JD492557 - Sequence 473581 from Patent EP1572962.
JD147115 - Sequence 128139 from Patent EP1572962.
JD229214 - Sequence 210238 from Patent EP1572962.
JD136977 - Sequence 118001 from Patent EP1572962.
JD076152 - Sequence 57176 from Patent EP1572962.
JD079087 - Sequence 60111 from Patent EP1572962.
JD378296 - Sequence 359320 from Patent EP1572962.
JD475736 - Sequence 456760 from Patent EP1572962.
JD546043 - Sequence 527067 from Patent EP1572962.
JD477742 - Sequence 458766 from Patent EP1572962.
JD482931 - Sequence 463955 from Patent EP1572962.
JD191760 - Sequence 172784 from Patent EP1572962.
JD173120 - Sequence 154144 from Patent EP1572962.
JD203439 - Sequence 184463 from Patent EP1572962.
JD055879 - Sequence 36903 from Patent EP1572962.
JD256463 - Sequence 237487 from Patent EP1572962.
JD527360 - Sequence 508384 from Patent EP1572962.
JD358509 - Sequence 339533 from Patent EP1572962.
JD104570 - Sequence 85594 from Patent EP1572962.
JD383500 - Sequence 364524 from Patent EP1572962.
JD155625 - Sequence 136649 from Patent EP1572962.

-  Biochemical and Signaling Pathways
  KEGG - Kyoto Encyclopedia of Genes and Genomes
hsa00250 - Alanine, aspartate and glutamate metabolism
hsa00330 - Arginine and proline metabolism
hsa01100 - Metabolic pathways

BioCyc Knowledge Library
HYDROXYPRODEG-PWY - trans-4-hydroxy-L-proline degradation
PROUT-PWY - L-proline degradation

Reactome (by CSHL, EBI, and GO)

Protein P30038 (Reactome details) participates in the following event(s):

R-HSA-70679 ALDH4A1 oxidises L-GluSS to Glu
R-HSA-6784399 ALDH4A1 dimer dehydrogenates 4-OH-L-glutamate semialdehyde to 4-OH-L-glutamate
R-HSA-70688 Proline catabolism
R-HSA-389661 Glyoxylate metabolism and glycine degradation
R-HSA-6788656 Histidine, lysine, phenylalanine, tyrosine, proline and tryptophan catabolism
R-HSA-71291 Metabolism of nitrogenous molecules
R-HSA-1430728 Metabolism

-  Other Names for This Gene
  Alternate Gene Symbols: A8K1Q7, AL4A1_HUMAN, ALDH4, B4DGE4, D2D4A3, ENST00000375341.1, ENST00000375341.2, ENST00000375341.3, ENST00000375341.4, ENST00000375341.5, ENST00000375341.6, ENST00000375341.7, NM_003748, P30038, P5CDH, Q16882, Q53HU4, Q5JNV6, Q8IZ38, Q96IF0, Q9UDI6, uc001bbc.1, uc001bbc.2, uc001bbc.3, uc001bbc.4, uc001bbc.5
UCSC ID: ENST00000375341.8
RefSeq Accession: NM_003748.4
Protein: P30038 (aka AL4A1_HUMAN or PUT2_HUMAN)
CCDS: CCDS188.1

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.