ZKSCAN3: Zinc Finger Protein with KRAB and SCAN Domains 3
Transcriptional regulator involved in autophagy, cell proliferation, and cancer
Gene Information Card
| Symbol | ZKSCAN3 |
|---|---|
| Full Name | Zinc Finger Protein With KRAB And SCAN Domains 3 |
| Gene Type | Protein coding |
| Chromosomal Location | 6p22.1 |
| NCBI Gene ID | 29993 ncbi.nlm.nih.gov/gene/29993 |
| Ensembl ID | ENSG00000118526 |
| UniProt ID | Q9BRR0 |
| OMIM ID | 617521 |
| HGNC ID | 13099 |
| Aliases | ZNF306, ZSCAN37, ZKSCAN3 |
Description
ZKSCAN3 (Zinc Finger Protein With KRAB And SCAN Domains 3) is a transcription factor that represses autophagy and lysosome biogenesis. It contains a KRAB domain and multiple C2H2-type zinc fingers. ZKSCAN3 is implicated in various cancers, including colorectal, prostate, and breast cancer, where it often acts as an oncogene by promoting cell proliferation and inhibiting autophagy.
Disease Associations
| Disease category | Pathophysiological mechanism | Genomic evidence |
|---|---|---|
| Colorectal Cancer | Overexpression of ZKSCAN3 represses autophagy and promotes tumor growth; knockdown induces autophagic cell death | PMID: 23563491, COSMIC |
| Prostate Cancer | ZKSCAN3 upregulation correlates with poor prognosis; promotes proliferation and invasion | PMID: 28249903 |
| Breast Cancer | ZKSCAN3 overexpression associated with aggressive subtypes; regulates cell cycle and autophagy | PMID: 30598549 |
| Multiple Myeloma | ZKSCAN3 is a target of the miR-137 tumor suppressor; silencing reduces cell viability | PMID: 26921324 |
Expression Profile
Tissue Expression
| Tissue | nTPM | level |
|---|---|---|
| Testis | 12.5 | Medium |
| Bone Marrow | 8.2 | Low |
| Colon | 6.1 | Low |
| Prostate | 5.8 | Low |
| Breast | 4.3 | Low |
Cell Line Expression
| Cell Line | nTPM | Notes |
|---|---|---|
| HeLa | 15.2 | Cervical cancer cell line |
| HCT116 | 12.8 | Colorectal carcinoma cell line |
| MCF7 | 9.5 | Breast cancer cell line |
| PC3 | 8.7 | Prostate cancer cell line |
| K562 | 6.3 | Leukemia cell line |
Data source：Human Protein Atlas（proteinatlas.org）
Mutations & Variants
Hotspot Mutations
| Variant | Type | Frequency | Functional Description |
|---|---|---|---|
| c.1015C>T (p.Arg339Trp) | Missense | <0.01% | Unknown; rare variant in COSMIC |
| c.1246G>A (p.Gly416Arg) | Missense | <0.01% | Unknown; rare variant in COSMIC |
| c.1570_1571insA (p.Thr524Asnfs*2) | Frameshift | <0.01% | Predicted loss of function |
Mutation functional classification
Loss of Function (LOF)
Frameshift mutations (e.g., p.Thr524Asnfs*2) likely result in truncated protein lacking zinc fingers, leading to loss of transcriptional repression.
Gain of Function (GOF)
Not well documented; overexpression in cancer suggests potential gain-of-function via increased repressive activity on autophagy genes.
Dominant Negative (DN)
No evidence for dominant-negative effects currently reported.
View complete mutation data：
Gene Ontology (GO)
Pathways
• Autophagy – ZKSCAN3 represses autophagy-related genes (e.g.
• MAP1LC3B
• ULK1)
• Lysosome biogenesis – ZKSCAN3 inhibits TFEB target genes
• Cell cycle – ZKSCAN3 promotes G1/S transition via cyclin D1 regulation
Protein Summary
ZKSCAN3 is a 544-amino acid nuclear protein containing an N-terminal KRAB domain, a SCAN domain, and 11 C2H2-type zinc fingers. It functions as a transcriptional repressor by binding to specific DNA sequences and recruiting corepressor complexes. ZKSCAN3 negatively regulates autophagy and lysosome biogenesis, thereby promoting cell survival and proliferation. Its overexpression in multiple cancers suggests an oncogenic role.
Related Services
Related Products
| Product name | Cat.No. | Species | Gene ID | |
|---|---|---|---|---|
| ZKSCAN3 Knockout HEK293 Cell Line | EDJ-KQ3193 | Human | 80317 | Details Get a Quote |
| ZKSCAN3 Knockout A-549 Cell Line | EDJ-KQ24642 | Human | 80317 | Details Get a Quote |
| ZKSCAN3 Knockout HCT 116 Cell Line | EDJ-KQ24643 | Human | 80317 | Details Get a Quote |
| ZKSCAN3 Knockout HeLa Cell Line | EDJ-KQ24644 | Human | 80317 | Details Get a Quote |
