LGALS3BP

Chr 17

galectin 3 binding protein

Also known as: 90K, BTBD17B, CyCAP, M2BP, MAC-2-BP, TANGO10B, gp90

NCBI Gene: 3959ENSG00000108679UniProt: Q08380

The galectins are a family of beta-galactoside-binding proteins implicated in modulating cell-cell and cell-matrix interactions. LGALS3BP has been found elevated in the serum of patients with cancer and in those infected by the human immunodeficiency virus (HIV). It appears to be implicated in immune response associated with natural killer (NK) and lymphokine-activated killer (LAK) cell cytotoxicity. Using fluorescence in situ hybridization the full length 90K cDNA has been localized to chromosome 17q25. The native protein binds specifically to a human macrophage-associated lectin known as Mac-2 and also binds galectin 1. [provided by RefSeq, Jul 2008]

0
Active trials
17
Pathogenic / LP
116
ClinVar variants
43
Pubs (1 yr)
0.1
Missense Z
1.43
LOEUF
Clinical Summary— LGALS3BP
⚡
Population Constraint (gnomAD)
Low constraint (pLI 0.00) — loss-of-function variants are relatively tolerated in the population.
📋
ClinVar Variants
17 Pathogenic / Likely Pathogenic· 87 VUS of 116 total submissions

Population Genetics & Constraint

gnomAD v4 — loss-of-function & missense intolerance

gnomAD
Tolerant — LoF & missense variants common in population
LoF Constraint
1.43LOEUF
pLI 0.000
Z-score 0.45
OE 0.86 (0.54–1.43)
Tolerant

Highly tolerant — LoF variants common in population

Missense Constraint
0.08Z-score
OE missense 0.99 (0.90–1.08)
341 obs / 345.0 exp
Tolerant

Mild missense constraint

Observed / Expected Ratios
LoF OE0.86 (0.54–1.43)
0≤0.351.4
Missense OE0.99 (0.90–1.08)
0≤0.61.4
Synonymous OE0.98
0≤1.21.6
LoF obs/exp: 11 / 12.7Missense obs/exp: 341 / 345.0Syn Z: 0.18
GOF
DN
0.5674th %ile
GOF
0.6930th %ile
LOF
0.3356th %ile

The highest-scoring mechanism for this gene is gain-of-function.

GOFprediction 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

116 submitted variants in ClinVar

ClinVar

Classification Summary

Pathogenic15
Likely Pathogenic2
VUS87
Likely Benign7
Benign5
15
Pathogenic
2
Likely Pathogenic
87
VUS
7
Likely Benign
5
Benign

Curated Variants Distribution

Classified variants from ClinVar · 5 ACMG categories

ClassificationLoFMissense + InframeNon-codingSynonymousTotal
Pathogenic
0
0
15
0
15
Likely Pathogenic
0
0
2
0
2
VUS
0
76
11
0
87
Likely Benign
0
6
0
1
7
Benign
0
1
0
4
5
Total083285116

LoF = frameshift, stop gained/lost, canonical splice · Counts from ClinVar esearch · Updated hourly

View in ClinVar →

LGALS3BP · 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

ClinicalTrials.gov

No active trials found for this gene.

Search ClinicalTrials.gov →
Clinical Literature
Landmark / reviewRecent case evidence
Full-Text Mentions
NLP-detected gene mentions in article bodies · via PubTator3
PubTator3
Top 5 full-text resultsSearch PubTator3 ↗
Key Publications
Landmark & review papers · by relevance
PubMed
Top 5 results · since 2015Search PubMed ↗
Recent Gene-Specific Literature
Gene in title · MEDLINE · newest first
Europe PMC
LGALS3BP promotes M1 polarization of macrophages and interacts with LGALS3, damaging endothelial function and exacerbating pulmonary arterial hypertension in systemic lupus erythematosus.
Guo Q et al.·Pathol Res Pract
2026
Prognostic Significance of LGALS3BP in Triple-Negative Breast Cancer: Implications for Immune Infiltration and Therapeutic Response.
Wang C et al.·J Biochem Mol Toxicol
2026
Siglec-14-LGALS3BP glycoimmune axis shapes tumor-associated macrophage polarization and confers poor outcome in colorectal cancer.
Lin KY et al.·NPJ Precis Oncol
2025Open Access
Serum Proteomic Profiling Uncovers LGALS3BP as a Potential Biomarker for Idiopathic Pulmonary Arterial Hypertension.
Li M et al.·Clin Respir J
2025Open Access
LGALS3BP Induces Insulin Resistance via TLR2-IKKα/β Pathway-Mediated IRS1 Serine Phosphorylation.
Sung M et al.·Endocrinol Metab (Seoul)
2026Open Access
Top 5 resultsSearch Europe PMC ↗

External Resources

Links to major genomics databases and tools

Franklin by Genoox
AI-powered variant curation and clinical analysis
DECIPHER
Genomic variants and phenotypes in rare disease patients