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Relevance to Autism

Three different homozygous variants (one nonsense, one frameshift, one missense) in the BCKDK gene that segregated with disease were identified in three consanguineous families presenting with autism and ID (Novarino et al., 2012).

Molecular Function

Catalyzes the phosphorylation and inactivation of the branched-chain alpha-ketoacid dehydrogenase complex, the key regulatory enzyme of the valine, leucine and isoleucine catabolic pathways. Key enzyme that regulate the activity state of the BCKD complex. Defects in this gene are associated with branched-chain ketoacid dehydrogenase kinase deficiency (BCKDKD) [MIM:614923], a metabolic disorder characterized by autism, epilepsy, intellectual disability, and reduced branched-chain amino acids.

External Links

        

References

Type
Title
Type of Disorder
Associated Disorders
Author, Year
Primary
Mutations in BCKD-kinase lead to a potentially treatable form of autism with epilepsy.
Branched-chain ketoacid dehydrogenase kinase defic
ASD, ID, epilepsy
Support
Integrating de novo and inherited variants in 42
ASD
Support
Novel Loss of Function Variant in BCKDK Causes a Treatable Developmental and Epileptic Encephalopathy
ASD, DD, epilepsy/seizures
Support
Genome sequencing of 320 Chinese children with epilepsy: a clinical and molecular study
ASD, DD, epilepsy/seizures
Support
Inherited and De Novo Genetic Risk for Autism Impacts Shared Networks.
ASD
Support
Whole genome sequencing analysis identifies sex differences of familial pattern contributing to phenotypic diversity in autism
ASD
Recent Recommendation
ASD, DD, ID
Epilepsy/seizures
Recent Recommendation
Two novel mutations in the BCKDK (branched-chain keto-acid dehydrogenase kinase) gene are responsible for a neurobehavioral deficit in two pediatri...
Branched-chain ketoacid dehydrogenase kinase defic
DD
Recent Recommendation
Structure-based design and mechanisms of allosteric inhibitors for mitochondrial branched-chain -ketoacid dehydrogenase kinase.
Variant ID
Variant Type
Allele Change
Residue Change
Inheritance Pattern
Inheritance Association
Family Type
Author, Year
 GEN423R001a 
 stop_gained 
 c.466C>T 
 p.Arg156Ter 
 Familial 
 Both parents 
 Multiplex 
 GEN423R002a 
 frameshift_variant 
 c.222del 
 p.Met74IlefsTer15 
 Familial 
 Both parents 
 Multiplex 
 GEN423R003a 
 missense_variant 
 c.671G>C 
 p.Arg224Pro 
 Familial 
 Both parents 
 Multiplex 
 GEN423R004a 
 splice_site_variant 
 c.520C>G 
 p.Arg174Gly 
 Familial 
 Both parents 
 Simplex 
 GEN423R005a 
 missense_variant 
 c.1166T>C 
 p.Leu389Pro 
 Familial 
 Both parents 
 Simplex 
 GEN423R006 
 frameshift_variant 
 c.986dup 
 p.Met329IlefsTer9 
 Familial 
 Maternal 
 Multiplex 
 GEN423R007a 
 frameshift_variant 
 c.159_160dup 
 p.Tyr54PhefsTer18 
 Familial 
 Maternal 
  
 GEN423R007b 
 splice_site_variant 
 c.716+1G>A 
  
 Familial 
 Paternal 
  
 GEN423R008a 
 inframe_deletion 
 c.999_1001del 
 p.Thr335del 
 Familial 
 Both parents 
 Multiplex 
 GEN423R009 
 missense_variant 
 c.256C>T 
 p.His86Tyr 
 De novo 
  
  
 GEN423R010a 
 stop_gained 
 c.466C>T 
 p.Arg156Ter 
 Familial 
 Both parents 
 Multiplex 
 GEN423R011a 
 stop_gained 
 c.466C>T 
 p.Arg156Ter 
 Familial 
 Both parents 
 Multiplex 
 GEN423R012a 
 stop_gained 
 c.466C>T 
 p.Arg156Ter 
 Familial 
 Both parents 
 Multiplex 
 GEN423R013a 
 stop_gained 
 c.1159C>T 
 p.Gln387Ter 
 Familial 
 Both parents 
 Simplex 
 GEN423R014a 
 stop_gained 
 c.14C>A 
 p.Ser5Ter 
 Familial 
 Both parents 
 Simplex 
 GEN423R015a 
 splice_site_variant 
 c.265-2A>G 
  
 Familial 
 Both parents 
 Simplex 
 GEN423R016a 
 splice_site_variant 
 c.264+1G>C 
  
 Familial 
 Both parents 
 Multiplex 
 GEN423R017a 
 stop_gained 
 c.433C>T 
 p.Gln145Ter 
 Unknown 
  
 Simplex 
 GEN423R017b 
 missense_variant 
 c.1100G>A 
 p.Gly367Asp 
 Unknown 
  
 Simplex 
 GEN423R018a 
 stop_gained 
 c.466C>T 
 p.Arg156Ter 
 Familial 
 Both parents 
 Multiplex 
 GEN423R019a 
 missense_variant 
 c.617A>C 
 p.His206Pro 
 Familial 
 Both parents 
 Simplex 
 GEN423R020 
 missense_variant 
 c.1216C>T 
 p.Arg406Trp 
 De novo 
  
  
Chromosome
CNV Locus
CNV Type
# of studies
Animal Model
16
Deletion-Duplication
 150
  construct
16
Deletion
 1
 
16
Deletion
 1
 

Model Summary

A novel mutation causing a phenotype named frogleg, because its severe splaying of the hind limbs, arose spontaneously in a colony of Sprague Dawley rats. Frogleg is a complex phenotype that includes abnormalities in hind limb function, reduced brain weight with dilated cerebral ventricles and infertility. Analysis of whole genome sequencing data within the linkage interval, identified a missense mutation in the branched-chain alpha-keto dehydrogenase kinase (Bckdk) gene. The mutation is located within the kinase domain of Bckdk and is predicted to be damaging.

References

Type
Title
Author, Year
Primary
A Spontaneous Missense Mutation in Branched Chain Keto Acid Dehydrogenase Kinase in the Rat Affects Both the Central and Peripheral Nervous Systems.
Model Type: Genetic
Model Genotype: Homozygous
Mutation: A novel mutation arose spontaneously in a colony of Sprague Dawley rats.
Allele Type: Spontaneous mutation
Strain of Origin: Sprague Dawley
Genetic Background: Sprague Dawley
ES Cell Line: Not Specified
Mutant ES Cell Line: Not Specified
Model Source: Unreported
Category
Entity
Quantity
Experimental Paradigm
Age at Testing
Clasping reflex1
Increased
 General observations
 Unreported
Size of cerebral ventricles: lateral ventricle1
Increased
 Magnetic resonance imaging (mri)
 2, 3.5 months
Myelination1
Decreased
 Transmission electron microscopy (tem)
 Unreported
Brain size1
Decreased
 General observations
 Unreported
Synaptic morphology1
Abnormal
 Immunofluorescence staining
 1-7 months
Compound muscle action potential1
Decreased
 In vivo local field potential (lfp) recordings
 2.5, 7 months
Reproductive function1
Decreased
 Histology
 5.5 months
Skeletal development: appendages (limbs, digits, tail)1
Abnormal
 General observations
 3.5, 5.5 months
Size/growth1
Decreased
 Body weight measurement
 1-10 weeks
Protein phosphorylation1
Decreased
 Western blot
 1-7 months
Amino acid levels1
Decreased
 Ion-exchange chromatography
 Unreported
Protein expression level evidence1
 No change
 Western blot
 Unreported
 Not Reported: Circadian sleep/wake cycle, Communications, Emotion, Immune response, Learning & memory, Maternal behavior, Physiological parameters, Repetitive behavior, Seizure, Sensory, Social behavior


Interactor Symbol Interactor Name Interactor Organism Entrez ID Uniprot ID Interaction Type Evidence Reference
BCKDHA branched chain keto acid dehydrogenase E1, alpha polypeptide 593 B4DP47 IP; MS
Ewing RM , et al. 2007
CAB39 calcium binding protein 39 51719 A8K8L7 IP; MS
Ewing RM , et al. 2007
CAB39L calcium binding protein 39-like 81617 Q9H9S4 IP; MS
Ewing RM , et al. 2007
CETN1 Centrin-1 1068 Q12798 IP; LC-MS/MS
Huttlin EL , et al. 2015
CETN2 centrin, EF-hand protein, 2 1069 P41208 IP; LC-MS/MS
Huttlin EL , et al. 2015
CETN3 centrin, EF-hand protein, 3 1070 O15182 IP; LC-MS/MS
Huttlin EL , et al. 2015
CHD2 chromodomain helicase DNA binding protein 2 1106 O14647 LC-MS/MS
Vertegaal AC , et al. 2006
FAM98B family with sequence similarity 98, member B 283742 Q52LJ0 IP; MS
Ewing RM , et al. 2007
FMR1 fragile X mental retardation 1 2332 G8JLE9 PAR-CLIP
Ascano M Jr , et al. 2012
GCNT3 Beta-1,3-galactosyl-O-glycosyl-glycoprotein beta-1,6-N-acetylglucosaminyltransferase 3 9245 O95395 IP; LC-MS/MS
Huttlin EL , et al. 2015
ISLR Immunoglobulin superfamily containing leucine-rich repeat protein 3671 O14498 IP; LC-MS/MS
Huttlin EL , et al. 2015
LGALS3BP lectin, galactoside-binding, soluble, 3 binding protein 3959 Q08380 IP; LC-MS/MS
Huttlin EL , et al. 2015
METTL21C Protein-lysine methyltransferase METTL21C 196541 Q5VZV1 IP; LC-MS/MS
Huttlin EL , et al. 2015
MRPL12 mitochondrial ribosomal protein L12 6182 P52815 IP; LC-MS/MS
Huttlin EL , et al. 2015
NBEA neurobeachin 26422 Q9EPN1 Y2H
Tuand K , et al. 2016
NIT1 nitrilase 1 NM_005600 Q86X76 IP; LC-MS/MS
Huttlin EL , et al. 2015
RNF219 ring finger protein 219 79596 Q5W0B1 IP; MS
Ewing RM , et al. 2007
RTCA RNA 3'-terminal phosphate cyclase 8634 O00442 IP; MS
Ewing RM , et al. 2007
TERF2 telomeric repeat binding factor 2 7014 Q9NYB0 MudPIT; LC-MS/MS
Giannone RJ , et al. 2010
TRAF4 TNF receptor-associated factor 4 9618 Q9BUZ4 Y2H
Xu YC , et al. 2002
UBC ubiquitin C 7316 P63279 IP; MS
Wagner SA , et al. 2011
UBE3A ubiquitin protein ligase E3A 7337 Q05086 IP; MS; COMPASS
Martnez-Nol G , et al. 2012
WDTC1 WD and tetratricopeptide repeats 1 23038 Q8N5D0 IP; LC-MS/MS
Huttlin EL , et al. 2015

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