Gene Gene information from NCBI Gene database.
Entrez ID 8050
Gene name Pyruvate dehydrogenase complex component X
Gene symbol PDHX
Synonyms (NCBI Gene)
DLDBPE3BPOPDXPDHXDPDX1proX
Chromosome 11
Chromosome location 11p13
Summary The pyruvate dehydrogenase (PDH) complex is located in the mitochondrial matrix and catalyzes the conversion of pyruvate to acetyl coenzyme A. The PDH complex thereby links glycolysis to Krebs cycle. The PDH complex contains three catalytic subunits, E1,
SNPs SNP information provided by dbSNP.
14
SNP ID Visualize variation Clinical significance Consequence
rs35560997 G>C Benign, likely-benign, uncertain-significance, conflicting-interpretations-of-pathogenicity Coding sequence variant, intron variant, missense variant
rs113309941 C>G,T Pathogenic Missense variant, stop gained, coding sequence variant, intron variant
rs139052284 C>A,G Conflicting-interpretations-of-pathogenicity, uncertain-significance Coding sequence variant, intron variant, missense variant
rs143131258 C>T Pathogenic Coding sequence variant, stop gained, intron variant
rs146876119 C>T Conflicting-interpretations-of-pathogenicity, uncertain-significance Coding sequence variant, intron variant, missense variant
miRNA miRNA information provided by mirtarbase database.
96
miRTarBase ID miRNA Experiments Reference
MIRT020386 hsa-miR-29c-3p Sequencing 20371350
MIRT030260 hsa-miR-26b-5p Microarray 19088304
MIRT032040 hsa-miR-16-5p Proteomics 18668040
MIRT032478 hsa-let-7b-5p Proteomics 18668040
MIRT051324 hsa-miR-15a-5p CLASH 23622248
Transcription factors Transcription factors information provided by TRRUST V2 database.
1
Transcription factor Regulation Reference
PAX6 Repression 12783165
Gene ontology (GO) Gene Ontology (GO) annotations describing the biological processes, molecular functions, and cellular components associated with a gene.
22
GO ID Ontology Definition Evidence Reference
GO:0004742 Function Dihydrolipoyllysine-residue acetyltransferase activity IDA 9242632
GO:0005515 Function Protein binding IPI 16263718, 16442803, 21516116, 25416956, 25525879, 28514442, 31515488, 32296183, 33961781
GO:0005654 Component Nucleoplasm IDA
GO:0005739 Component Mitochondrion HTP 34800366
GO:0005739 Component Mitochondrion IBA
Other IDs Other IDs provides unique identifiers for this gene in OMIM, HGNC, and Ensembl databases.
MIM HGNC e!Ensembl
608769 21350 ENSG00000110435
Protein Protein information from UniProt database.
UniProt ID Unique identifier for the protein in the UniProt database. Click to view detailed protein information.
O00330
Protein name Pyruvate dehydrogenase protein X component, mitochondrial (Dihydrolipoamide dehydrogenase-binding protein of pyruvate dehydrogenase complex) (E3-binding protein) (E3BP) (Lipoyl-containing pyruvate dehydrogenase complex component X) (proX)
Protein function Required for anchoring dihydrolipoamide dehydrogenase (E3) to the dihydrolipoamide transacetylase (E2) core of the pyruvate dehydrogenase complexes of eukaryotes. This specific binding is essential for a functional PDH complex.
PDB 1ZY8 , 2DNC , 2F5Z , 2F60 , 6H60
Family and domains

Pfam

Accession ID Position in sequence Description Type
PF00364 Biotin_lipoyl 57 131 Biotin-requiring enzyme Domain
PF02817 E3_binding 182 217 e3 binding domain Family
PF00198 2-oxoacid_dh 272 501 2-oxoacid dehydrogenases acyltransferase (catalytic domain) Domain
Sequence
Sequence length 501
Interactions View interactions
Pathways Pathway information has different metabolic/signaling pathways associated with genes.
  KEGG  Reactome
  Metabolic pathways   Regulation of pyruvate dehydrogenase (PDH) complex
Glyoxylate metabolism and glycine degradation
Signaling by Retinoic Acid
Pyruvate metabolism
Associated diseases Disease associations from ClinVar (causal & non-causal) and other databases (OMIM, Orphanet, GWAS, etc.).
26
Evidence Score: ★☆☆☆☆  Gene-disease association found in Text Mining only ★★☆☆☆  Found in Text Mining and Unknown/Other Associations ★★★☆☆  Reported in Unknown/Other Associations across ≥2 Sources ★★★★☆  ClinVar: Pathogenic/Likely Pathogenic (<5 Variants) ★★★★★  ClinVar: Pathogenic/Likely Pathogenic (≥5 Variants)
Causal Diseases associated with Pathogenic or Likely Pathogenic variants in ClinVar
Phenotype Name Clinical Significance dbSNP ID RCV Accession Evidence Score
Pyruvate dehydrogenase E1-alpha deficiency Likely pathogenic rs1158194122 RCV000721986
★★★★☆
ClinVar: Pathogenic / Likely Pathogenic (<5 Variants)
Pyruvate dehydrogenase E3-binding protein deficiency Likely pathogenic; Pathogenic rs766377898, rs1554989996, rs724159828, rs724159829, rs724159830, rs724159979, rs113309941, rs1135402725, rs758020436, rs2494708862, rs2494744424, rs763473883, rs756985515, rs11539201, rs1057518180
View all (4 more)
RCV005225436
RCV000002193
RCV000002194
RCV000002195
RCV000002196
View all (14 more)
★★★★★
ClinVar: Pathogenic / Likely Pathogenic (≥5 Variants)
Unknown / Other Associations ClinVar entries with uncertain/conflicting evidence, and associations from other databases (OMIM, Orphanet, GWAS, etc.) where the gene is not established as causal.
Phenotype Name Clinical Significance Source Evidence Score
Cervical cancer Likely benign ClinVar
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
Cholangiocarcinoma Benign ClinVar
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
Colon adenocarcinoma Benign ClinVar
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
Colorectal cancer Uncertain significance ClinVar
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
Associations from Text Mining Disease associations identified through text mining
Disease Name Disease (Merged) Source PMID Relationship Type Evidence Score
Acidosis Lactic Lactic acidosis Pubtator 25087164 Associate
★☆☆☆☆
Found in Text Mining only
Adenocarcinoma Adenocarcinoma BEFREE 18665037, 26408346, 29809170, 31276933
★☆☆☆☆
Found in Text Mining only
Adenocarcinoma of large intestine Colorectal Cancer BEFREE 18855980
★☆☆☆☆
Found in Text Mining only
Adenocarcinoma of pancreas Pancreatic adenocarcinoma BEFREE 20886630, 29309817, 31428515
★☆☆☆☆
Found in Text Mining only
Amyloidosis Amyloidosis BEFREE 28348116
★☆☆☆☆
Found in Text Mining only
Anaplasia Anaplasia BEFREE 28918929, 29542001
★☆☆☆☆
Found in Text Mining only
Annular pancreas Annular pancreas BEFREE 29317564
★☆☆☆☆
Found in Text Mining only
ANOPHTHALMIA AND PULMONARY HYPOPLASIA Syndromic microphthalmia BEFREE 22945649, 23102107, 23887057, 23980075, 24462734, 24469904, 25719829, 26279302, 27494892, 27659014, 28092668, 29050937, 29298796, 29309817, 30293872
View all (3 more)
★☆☆☆☆
Found in Text Mining only
Apraxias Apraxia HPO_DG
★☆☆☆☆
Found in Text Mining only
Arthrogryposis Arthrogryposis multiplex congenita HPO_DG
★☆☆☆☆
Found in Text Mining only