Is ABCD1 p.Pro535= (c.1605A>G) pathogenic?

ABCD1 p.Pro535= (c.1605A>G) is classified Likely benign in ABCD1 (ClinVar, Single submitter, 1 submitter; last evaluated 2025-10-07). Very rare (popmax 0.00217%, amr); Associated with adrenoleukodystrophy.

What condition is associated with ABCD1 p.Pro535= (c.1605A>G)?

ABCD1 p.Pro535= (c.1605A>G) is associated with adrenoleukodystrophy (ClinVar).

How common is ABCD1 p.Pro535= (c.1605A>G) in the general population?

ABCD1 p.Pro535= (c.1605A>G) is very rare (popmax 0.00217%, amr) (gnomAD).

How is X-linked adrenoleukodystrophy inherited?

Typically X-linked dominant (Orphanet). A genetic counselor can assess individual risk for a family.

ABCD1 p.Pro535=

c.1605A>G · rs2091762849 · VCV1079670

Likely benign Single submitter

Classification

Likely benign

ClinVar

Review

Single submitter ★☆☆☆

ClinVar · 1 submitter

gnomAD v4.1

Rare

very rare (popmax 0.00217%, amr)

Conditions

adrenoleukodystrophy

⚠ Built without this gene's context — gene constraint and dosage, protein structure, pathways, panels and related-variant links were not looked up for this page. why

Computational evidence

Protein change
Missense predictors do not apply to this variant type; conservation carries the signal.
REVEL	0.06	moderately benign-leaning
Splicing
SpliceAI	—	not looked up on this page · why
Constraint at this position
Conservation	phyloP -12	GERP -3.4
Overall
CADD	0.016	PHRED · no single calibrated threshold — expert panels disagree

Population frequency

gnomAD v4.1 · exomes + genomes

Grpmax group 0.00217% Admixed American · 1/45,995 alleles

Overall 0.000165% 2/1,210,909 alleles · very rare exomes 2/1,097,984 · genomes 0/112,925 · joint denominator

Ancestry group	Frequency	1 in
Admixed Americangrpmax	0.00217%	45,995
African / African-American	0.00174%	57,565

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: ABCD1
Protein: p.Pro535=
Coding: c.1605A>G
MANE Select: NM_000033
dbSNP: rs2091762849
Type: single nucleotide variant
Location: chrX:153740208 (GRCh38)

Full ABCD1 gene report on Sugi Atlas → Gene function, pathways, protein structure, interactions & more

Disease context

adrenoleukodystrophy — disease report on Sugi Atlas → Associated genes, phenotypes, clinical trials & treatments

For X-linked adrenoleukodystrophy (Orphanet):

Inheritance: X-linked dominant
Onset: Adolescent, Adult, Childhood, Elderly
Prevalence: 1-9 / 1 000 000 (Israel)

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/abcd1-p-pro535 (accessed [today's date]).

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