MCCC2

Chr 5AR

methylcrotonyl-CoA carboxylase subunit 2

Also known as: MCCB, MCCCbeta

This gene encodes the small subunit of 3-methylcrotonyl-CoA carboxylase. This enzyme functions as a heterodimer and catalyzes the carboxylation of 3-methylcrotonyl-CoA to form 3-methylglutaconyl-CoA. Mutations in this gene are associated with 3-Methylcrotonylglycinuria, an autosomal recessive disorder of leucine catabolism. Alternative splicing results in multiple transcript variants encoding distinct isoforms. [provided by RefSeq, May 2018]

Primary Disease Associations & Inheritance

3-Methylcrotonyl-CoA carboxylase 2 deficiencyMIM #210210
AR
UniProt3-methylcrotonoyl-CoA carboxylase 2 deficiency
0
Active trials
0
Pathogenic / LP
0
ClinVar variants
12
Pubs (1 yr)
0.3
Missense Z
0.90
LOEUF
Clinical SummaryMCCC2
🧬
Gene-Disease Validity (ClinGen)
3-methylcrotonyl-CoA carboxylase deficiency · ARDefinitive

Definitive — sufficient evidence for diagnostic panels

Population Constraint (gnomAD)
Low constraint (pLI 0.00) — loss-of-function variants are relatively tolerated in the population.
📖
GeneReview available — MCCC2
Authoritative clinical overview · Recommended first read
Open GeneReview ↗

Population Genetics & Constraint

gnomAD v4 — loss-of-function & missense intolerance

Tolerant — LoF & missense variants common in population
LoF Constraint
0.90LOEUF
pLI 0.000
Z-score 2.04
OE 0.63 (0.450.90)
Tolerant

Typical tolerance to LoF variation

Missense Constraint
0.31Z-score
OE missense 0.95 (0.861.05)
298 obs / 313.2 exp
Tolerant

Mild missense constraint

Observed / Expected Ratios
LoF OE0.63 (0.450.90)
00.351.4
Missense OE0.95 (0.861.05)
00.61.4
Synonymous OE1.00
01.21.6
LoF obs/exp: 22 / 35.0Missense obs/exp: 298 / 313.2Syn Z: 0.03
DN
DN
0.80top 25%
GOF
0.5562th %ile
LOF
0.2582th %ile

The highest-scoring mechanism for this gene is dominant-negative.

DNprediction above median

Note: In-silico variant effect predictors (SIFT, PolyPhen, REVEL, CADD) may underestimate pathogenicity of missense variants in genes with GOF or DN mechanisms. Consider functional evidence and clinical context.

Predictions from Badonyi M, Marsh JA. PLoS ONE. 2024;19(8):e0307312.

ClinVar Variant Classifications

0 submitted variants in ClinVar

MCCC2 · protein map & ClinVar variants

Showing all ClinVar variants across the protein. Search a specific variant to highlight its position.

Gene2Phenotype Curations

MCCC2-related 3-methylcrotonyl-CoA carboxylase deficiency

definitive
ARLoss Of FunctionAbsent Gene Product
Dev. Disorders
G2P ↗

Gene2Phenotype curations · DECIPHER consortium patient cohort (public variants) · deciphergenomics.org

Clinical Trials

Active and recruiting trials from ClinicalTrials.gov

No active trials found for this gene.

Search ClinicalTrials.gov →
Clinical Literature
Landmark / reviewRecent case evidence
Recent Gene-Specific Literature
Gene in title · MEDLINE · newest first
Europe PMC