SMC3

Chr 10AD

structural maintenance of chromosomes 3

Also known as: BAM, BMH, CDLS3, CSPG6, HCAP, SMC3L1

This gene belongs to the SMC3 subfamily of SMC proteins. The encoded protein occurs in certain cell types as either an intracellular, nuclear protein or a secreted protein. The nuclear form, known as structural maintenance of chromosomes 3, is a component of the multimeric cohesin complex that holds together sister chromatids during mitosis, enabling proper chromosome segregation. Post-translational modification of the encoded protein by the addition of chondroitin sulfate chains gives rise to the secreted proteoglycan bamacan, an abundant basement membrane protein. [provided by RefSeq, Jul 2008]

GeneReviewsOMIMResearchGenerating clinical summary…

Primary Disease Associations & Inheritance

Cornelia de Lange syndrome 3MIM #610759
AD

Clinical highlights

Gene-disease validity (ClinGen)
Cornelia de Lange syndrome · ADDefinitivesufficient evidence for diagnostic panels
Interpreting a novel variant
This gene is strongly intolerant of loss-of-function variation in the population, so LoF variants warrant close attention. No curated mechanism annotation is available — see the mechanism card for the computational prediction and its caveats.Curated gene-level mechanism — a prior for triage, not a per-variant call.
0
Active trials
69
Pubs (1 yr)
P/LP submissions
P/LP missense
0.04
LOEUF· LoF intol.
LOF
Mechanism· predicted
📖
GeneReview available — SMC3
Authoritative clinical overview · Recommended first read
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Population Genetics & Constraint

gnomAD v4 — loss-of-function & missense intolerance

Dual constrained — LoF & missense intolerant
LoF Constraint?
0.04LOEUF
pLI 1.000
Z-score 8.26
OE 0.00 (0.000.04)
Highly constrained

Among the most LoF-intolerant genes (~top 3%)

Missense Constraint?
6.40Z-score
OE missense 0.28 (0.250.32)
178 obs / 630.1 exp
Constrained

Extremely missense-constrained (top ~0.01%)

Observed / Expected Ratios?
LoF OE?0.00 (0.000.04)
00.351.4
Missense OE?0.28 (0.250.32)
00.61.4
Synonymous OE?1.06
01.21.6
LoF obs/exp: 0 / 79.5Missense obs/exp: 178 / 630.1Syn Z: -0.65

ClinVar Variant Classifications

0 submitted variants in ClinVar

Protein Context — Lollipop Plot

SMC3 · protein map & ClinVar variants

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

Clinical Trials

Active and recruiting trials from ClinicalTrials.gov

No active trials found for this gene.

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