Is MMAB p.Ser134= (c.402G>A) pathogenic?

MMAB p.Ser134= (c.402G>A) is classified Likely benign in MMAB (ClinVar, Multiple submitters, 4 submitters; last evaluated 2025-09-02). Ultra-rare (popmax 0.0419%, amr); Associated with methylmalonic aciduria, cblB type.

What condition is associated with MMAB p.Ser134= (c.402G>A)?

MMAB p.Ser134= (c.402G>A) is associated with methylmalonic aciduria, cblB type (ClinVar).

How common is MMAB p.Ser134= (c.402G>A) in the general population?

MMAB p.Ser134= (c.402G>A) is ultra-rare (popmax 0.0419%, amr) (gnomAD).

How is Vitamin B12-responsive methylmalonic acidemia inherited?

Typically Autosomal recessive (Orphanet). A genetic counselor can assess individual risk for a family.

MMAB p.Ser134=

c.402G>A · rs756766385 · VCV658432

Likely benign Multiple submitters

Classification

Likely benign

ClinVar

Review

Multiple submitters ★★☆☆

ClinVar · 4 submitters

gnomAD v4.1

Rare

ultra-rare (popmax 0.0419%, amr)

Conditions

methylmalonic aciduria, cblB type

Computational evidence

Protein change
Missense predictors do not apply to this variant type; conservation carries the signal.
Splicing
SpliceAI	—	not assessed · no allele here is in the release
Constraint at this position
Conservation	phyloP -5.6	GERP -3.7
Overall
CADD	3.766	PHRED · no single calibrated threshold — expert panels disagree

Population frequency

gnomAD v4.1 · exomes + genomes

Grpmax group 0.0419% Admixed American · 25/59,660 alleles

Filtering AF 0.0291% ClinGen BA1/BS1 input FAF95, joint · FAF99 0.0249%

Overall 0.00503% 81/1,609,306 alleles · ultra-rare exomes 74/1,457,186 · genomes 7/152,120 · joint denominator

Ancestry group	Frequency	1 in
Admixed Americangrpmax	0.0419%	2,386
European (non-Finnish)	0.00441%	22,652
Remaining individualsnot grpmax-eligible	0.00321%	31,121
African / African-American	0.00267%	37,402

Rarity supports pathogenicity (ACMG PM2); frequency above a disease-specific BA1/BS1 threshold argues against it. A variant frequent in one ancestry group can be near-absent in others, so a single global figure can mislead.

Variant & gene context

Gene: MMAB
Protein: p.Ser134=
Coding: c.402G>A
MANE Select: NM_052845
dbSNP: rs756766385
Type: single nucleotide variant
Location: chr12:109561799 (GRCh38)
Gene constraint: LOEUF 0.874 · pLI <0.01 · ClinGen HI gene assoc. with recessive phenotype (gnomAD)
Structure: AlphaFold pLDDT 82.39 · 6 PDB
Residue 134: a turn; a modified residue (phosphoserine)

Full MMAB gene report on Sugi Atlas → Gene function, pathways, protein structure, interactions & more

Disease context

methylmalonic aciduria, cblB type — disease report on Sugi Atlas → Associated genes, phenotypes, clinical trials & treatments

For Vitamin B12-responsive methylmalonic acidemia (Orphanet):

Inheritance: Autosomal recessive
Onset: Childhood

Similar variants

MMAB p.Ser134Leu Uncertain significance ★★ ⚠ same residue
MMAB c.197-1G>T Pathogenic ★★ same condition
MMAB c.290+1G>A Likely pathogenic ★★ same condition
MMAB c.291-1G>A Pathogenic ★★ same condition
MMAB c.349-1G>C Pathogenic/Likely pathogenic ★★ same condition
MMAB c.584+2T>C Likely pathogenic ★★ same condition
MMAB p.Arg186Gln Pathogenic/Likely pathogenic ★★ same condition
MMAB p.Arg186Pro Likely pathogenic ★★ same condition

Built on 18 open, versioned datasets — ClinVar, gnomAD, AlphaMissense, REVEL, ClinGen & more — plus Sugi Variant's own cross-source analysis. Source data 2026-01–2026-10, ClinVar 2026-10. Full sources & versions →

Cite Sugi Variant

Gür T. Sugi Variant: A Deterministic Per-Variant Germline Reference from a Knowledge Graph for Humans and AI Agents. 2026. doi:10.5281/zenodo.21509445. This variant: https://sugi.bio/variant/mmab-p-ser134 (accessed [today's date]).

Preprint & method: sugi.bio/variant/method Machine-readable: this page as Markdown