Human Gene DLD (uc011kmh.2)
  Description: Homo sapiens dihydrolipoamide dehydrogenase (DLD), nuclear gene encoding mitochondrial protein, mRNA.
RefSeq Summary (NM_000108): This gene encodes a member of the class-I pyridine nucleotide-disulfide oxidoreductase family. The encoded protein has been identified as a moonlighting protein based on its ability to perform mechanistically distinct functions. In homodimeric form, the encoded protein functions as a dehydrogenase and is found in several multi-enzyme complexes that regulate energy metabolism. However, as a monomer, this protein can function as a protease. Mutations in this gene have been identified in patients with E3-deficient maple syrup urine disease and lipoamide dehydrogenase deficiency. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Jan 2014].
Transcript (Including UTRs)
   Position: hg19 chr7:107,531,586-107,561,643 Size: 30,058 Total Exon Count: 13 Strand: +
Coding Region
   Position: hg19 chr7:107,531,696-107,559,704 Size: 28,009 Coding Exon Count: 13 

Page IndexSequence and LinksUniProtKB CommentsPrimersGenetic AssociationsMalaCards
CTDGene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein Structure
Other SpeciesGO AnnotationsmRNA DescriptionsPathwaysOther NamesGeneReviews
Model InformationMethods
Data last updated at UCSC: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr7:107,531,586-107,561,643)mRNA (may differ from genome)Protein (486 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGeneCardsGeneNetwork
H-INVHGNCLynxMalacardsMGIOMIM
PubMedTreefamUniProtKBWikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: E9PEX6_HUMAN
DESCRIPTION: SubName: Full=Dihydrolipoyl dehydrogenase, mitochondrial;
CAUTION: The sequence shown here is derived from an Ensembl automatic analysis pipeline and should be considered as preliminary data.

-  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.
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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


-  Genetic Association Studies of Complex Diseases and Disorders
  Genetic Association Database (archive): DLD
CDC HuGE Published Literature: DLD
Positive Disease Associations: Alzheimer's Disease , P-Selectin , ulcerative colitis
Related Studies:
  1. Alzheimer's Disease
    Brown, A. M. et al. 2004, Association of the dihydrolipoamide dehydrogenase gene with Alzheimer's disease in an Ashkenazi Jewish population., American journal of medical genetics Part B, Neuropsychiatric genetics. 2004 Nov;131(1):60-6. [PubMed 15389771]
    The DLD genotype appears to operate independently of APOE in conferring AD risk.
  2. P-Selectin
    Emelia J Benjamin et al. BMC medical genetics 2007, Genome-wide association with select biomarker traits in the Framingham Heart Study., BMC medical genetics. [PubMed 17903293]
    The Framingham GWAS represents a resource to describe potentially novel genetic influences on systemic biomarker variability. The newly described associations will need to be replicated in other studies.
  3. P-Selectin
    Emelia J Benjamin et al. BMC medical genetics 2007, Genome-wide association with select biomarker traits in the Framingham Heart Study., BMC medical genetics. [PubMed 17903293]
    The Framingham GWAS represents a resource to describe potentially novel genetic influences on systemic biomarker variability. The newly described associations will need to be replicated in other studies.
           more ... click here to view the complete list

-  MalaCards Disease Associations
  MalaCards Gene Search: DLD
Diseases sorted by gene-association score: dihydrolipoamide dehydrogenase deficiency* (1691), dihydrolipoamide dehydrogenase e3 deficiency* (118), leigh syndrome* (19), retinal degeneration, late-onset, autosomal dominant (12), lactic acidosis (11), cutaneous anthrax (9), alpha-ketoglutarate dehydrogenase deficiency (9), interstitial pneumonitis, desquamative, familial (7), corneal endothelial dystrophy, autosomal recessive (6), maple syrup urine disease, type ii (5)
* = Manually curated disease association

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

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 55.48 RPKM in Heart - Left Ventricle
Total median expression: 914.96 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 -38.40110-0.349 Picture PostScript Text
3' UTR -505.501939-0.261 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
IPR016156 - FAD/NAD-linked_Rdtase_dimer
IPR013027 - FAD_pyr_nucl-diS_OxRdtase
IPR006258 - Lipoamide_DH
IPR004099 - Pyr_nucl-diS_OxRdtase_dimer
IPR023753 - Pyr_nucl-diS_OxRdtase_FAD/NAD
IPR001327 - Pyr_OxRdtase_NAD-bd_dom

Pfam Domains:
PF00070 - Pyridine nucleotide-disulphide oxidoreductase
PF02852 - Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain
PF07992 - Pyridine nucleotide-disulphide oxidoreductase

SCOP Domains:
51735 - NAD(P)-binding Rossmann-fold domains
51905 - FAD/NAD(P)-binding domain
51971 - Nucleotide-binding domain
51984 - MurCD N-terminal domain
55424 - FAD/NAD-linked reductases, dimerisation (C-terminal) domain

ModBase Predicted Comparative 3D Structure on E9PEX6
FrontTopSide
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
No orthologGenome BrowserNo orthologNo orthologNo orthologNo ortholog
 Gene Details    
 Gene Sorter    
 RGD    
 Protein Sequence    
 Alignment    

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0004148 dihydrolipoyl dehydrogenase activity
GO:0009055 electron carrier activity
GO:0016491 oxidoreductase activity
GO:0050660 flavin adenine dinucleotide binding

Biological Process:
GO:0022900 electron transport chain
GO:0045454 cell redox homeostasis
GO:0055114 oxidation-reduction process

Cellular Component:
GO:0005654 nucleoplasm
GO:0005739 mitochondrion


-  Descriptions from all associated GenBank mRNAs
  AK294146 - Homo sapiens cDNA FLJ56061 complete cds, highly similar to Dihydrolipoyl dehydrogenase, mitochondrial precursor (EC 1.8.1.4).
AK312346 - Homo sapiens cDNA, FLJ92665, highly similar to Homo sapiens dihydrolipoamide dehydrogenase (E3 component of pyruvate dehydrogenase complex, 2-oxo-glutarate complex, branched chain keto acid dehydrogenase complex) (DLD), mRNA.
AK295080 - Homo sapiens cDNA FLJ50515 complete cds, highly similar to Dihydrolipoyl dehydrogenase, mitochondrial precursor (EC 1.8.1.4).
AK225301 - Homo sapiens mRNA for dihydrolipoamide dehydrogenase precursor variant, clone: HEP01396.
J03490 - Human lipoamide dehydrogenase mRNA, complete cds.
AK297508 - Homo sapiens cDNA FLJ56112 complete cds, highly similar to Dihydrolipoyl dehydrogenase, mitochondrial precursor (EC 1.8.1.4).
AK300077 - Homo sapiens cDNA FLJ50661 complete cds, highly similar to Dihydrolipoyl dehydrogenase, mitochondrial precursor (EC 1.8.1.4).
AK225289 - Homo sapiens mRNA for dihydrolipoamide dehydrogenase precursor variant, clone: HEP02468.
AK310220 - Homo sapiens cDNA, FLJ17262.
AB209703 - Homo sapiens mRNA for Dihydrolipoamide dehydrogenase, variant protein.
BC018648 - Homo sapiens dihydrolipoamide dehydrogenase, mRNA (cDNA clone MGC:2115 IMAGE:3029752), complete cds.
BC018696 - Homo sapiens dihydrolipoamide dehydrogenase, mRNA (cDNA clone MGC:3866 IMAGE:3029752), complete cds.
GQ901028 - Homo sapiens clone HEL-T-140 epididymis secretory sperm binding protein mRNA, complete cds.
J03620 - Human dihydrolipoamide dehydrogenase mRNA, complete cds.
JD244949 - Sequence 225973 from Patent EP1572962.
CU676276 - Synthetic construct Homo sapiens gateway clone IMAGE:100023034 5' read DLD mRNA.
AB529125 - Synthetic construct DNA, clone: pF1KB4983, Homo sapiens DLD gene for dihydrolipoamide dehydrogenase, without stop codon, in Flexi system.
HQ447584 - Synthetic construct Homo sapiens clone IMAGE:100070927; CCSB014673_03 dihydrolipoamide dehydrogenase (DLD) gene, encodes complete protein.
KJ891053 - Synthetic construct Homo sapiens clone ccsbBroadEn_00447 DLD gene, encodes complete protein.
KR711447 - Synthetic construct Homo sapiens clone CCSBHm_00023758 DLD (DLD) mRNA, encodes complete protein.
KR711448 - Synthetic construct Homo sapiens clone CCSBHm_00023759 DLD (DLD) mRNA, encodes complete protein.
KR711449 - Synthetic construct Homo sapiens clone CCSBHm_00023761 DLD (DLD) mRNA, encodes complete protein.
KR711450 - Synthetic construct Homo sapiens clone CCSBHm_00023762 DLD (DLD) mRNA, encodes complete protein.
JD020815 - Sequence 1839 from Patent EP1572962.
JD026960 - Sequence 7984 from Patent EP1572962.
JD025842 - Sequence 6866 from Patent EP1572962.
JD553629 - Sequence 534653 from Patent EP1572962.
JD520760 - Sequence 501784 from Patent EP1572962.
JD557847 - Sequence 538871 from Patent EP1572962.
JD494915 - Sequence 475939 from Patent EP1572962.
JD233779 - Sequence 214803 from Patent EP1572962.
JD141259 - Sequence 122283 from Patent EP1572962.

-  Biochemical and Signaling Pathways
  KEGG - Kyoto Encyclopedia of Genes and Genomes
hsa00010 - Glycolysis / Gluconeogenesis
hsa00020 - Citrate cycle (TCA cycle)
hsa00260 - Glycine, serine and threonine metabolism
hsa00280 - Valine, leucine and isoleucine degradation
hsa00620 - Pyruvate metabolism
hsa01100 - Metabolic pathways

-  Other Names for This Gene
  Alternate Gene Symbols: AK297508, E9PEX6, E9PEX6_HUMAN, NM_000108, NP_000099
UCSC ID: uc011kmh.2
RefSeq Accession: NM_000108
Protein: E9PEX6 CCDS: CCDS5749.1

-  GeneReviews for This Gene
  GeneReviews article(s) related to gene DLD:
dld-def (Dihydrolipoamide Dehydrogenase Deficiency)
leigh-nucl-ov (Nuclear Gene-Encoded Leigh Syndrome SpectrumOverview)
pdhc-def-ov (Primary Pyruvate Dehydrogenase Complex Deficiency Overview)

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: AK297508.1
exon count: 13CDS single in 3' UTR: no RNA size: 1993
ORF size: 1461CDS single in intron: no Alignment % ID: 99.80
txCdsPredict score: 3090.50frame shift in genome: no % Coverage: 100.00
has start codon: yes stop codon in genome: no # of Alignments: 1
has end codon: yes retained intron: no # AT/AC introns 0
selenocysteine: no end bleed into intron: 0# strange splices: 0
Click here for a detailed description of the fields of the table above.

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