Affinage

NCKAP1

Nck-associated protein 1 · UniProt Q9Y2A7

Length
1128 aa
Mass
128.8 kDa
Annotated
2026-06-10
21 papers in source corpus 9 papers cited in narrative 9 extracted findings
Cross-family judge vs UniProt: Affinage preferred faithfulness: 7/7 claims corpus-supported (100%)

Mechanistic narrative

Synthesis pass · prose summary of the discoveries below

NCKAP1 is a core structural subunit of the WAVE regulatory complex (WRC) that couples RAC1 GTPase signaling to branched actin polymerization, driving cell motility across normal and malignant contexts (PMID:27432794). It maintains WRC integrity by bridging CYFIP and WASF subunits: silencing NCKAP1 destabilizes the WASF3 complex and prevents RAC1 from associating with it, and stapled peptides targeting the NCKAP1–CYFIP1 interface reproduce this disassembly and RAC1 dissociation, abolishing cancer cell invasion and metastasis (PMID:27432794). Through WRC-dependent actin dynamics, NCKAP1 supports lamellipodial protrusion and coordinates FAK–paxillin focal adhesion signaling and adherens junction remodeling in endothelial cells, thereby enabling endothelial barrier formation and angiogenesis (PMID:42095096). The same actin-polymerizing function is required for proper neuronal migration during cortical development (PMID:33157009) and for microglial phagocytosis, where reduced NCKAP1 produces defective actin polymerization that overexpression rescues (PMID:37154887). In vivo, NCKAP1 loss in a melanoma model delays tumor onset and proliferation while remodeling stroma and immune infiltration, linking WRC-driven actin assembly to tumor tissue integrity (PMID:32777214). In a hepatocellular carcinoma context lacking WASF1, NCKAP1 overexpression instead upregulates Rb1 and p53 and arrests cell-cycle progression, indicating a context-dependent role outside the canonical invasion axis (PMID:31068575). Autism-linked missense variants cluster at the NCKAP1–CYFIP2 interface and predominantly weaken NCKAP1 binding to the WRC (PMID:39660913).

Mechanistic history

Synthesis pass · year-by-year structured walk · 8 steps
  1. 2000 Medium

    Established the first functional consequence of losing NCKAP1 in neurons, framing it as a pro-survival factor before any molecular mechanism was known.

    Evidence Antisense oligonucleotide knockdown with apoptosis readout in neuronal cells

    PMID:10673335

    Open questions at the time
    • No molecular mechanism linking knockdown to apoptosis
    • Pro-survival role not connected to actin or WRC function at this stage
  2. 2001 Low

    Placed NCKAP1 within a Nck/c-Abl tyrosine kinase signaling network via a binding partner, an early hint of its role in signal transduction.

    Evidence Yeast two-hybrid screen identifying hNap1BP interaction

    PMID:11418237

    Open questions at the time
    • Single yeast two-hybrid without reciprocal Co-IP or reconstitution
    • Functional relevance of the Nck network to actin regulation untested
  3. 2016 High

    Defined NCKAP1 as a core structural subunit holding the WAVE/WASF3 complex together and enabling RAC1 recruitment, mechanistically explaining its requirement for invasion and metastasis.

    Evidence siRNA silencing, reciprocal Co-IP, RAC1 binding assay, stapled-peptide interface disruption, and in vivo metastasis model across multiple cancer lines

    PMID:27432794

    Open questions at the time
    • Atomic details of the NCKAP1–CYFIP1 interface not resolved here
    • Whether destabilization is identical across all WASF paralogs not addressed
  4. 2019 Medium

    Revealed a non-canonical, WRC-independent role in which NCKAP1 modulates the cell cycle through Rb1/p53 in a cellular context lacking WASF1.

    Evidence NCKAP1 overexpression with Rb1/p53 western blot, cell-cycle FACS, and xenograft model in HCC cells

    PMID:31068575

    Open questions at the time
    • Mechanism connecting NCKAP1 to Rb1/p53 upregulation unknown
    • Whether this is direct or secondary to altered actin signaling unresolved
  5. 2020 Medium

    Demonstrated an in vivo developmental requirement for NCKAP1 in neuronal cytoskeletal dynamics and cortical neuronal migration.

    Evidence In utero electroporation with Nckap1 loss-of-function constructs and cortical migration assay in mouse

    PMID:33157009

    Open questions at the time
    • WRC dependence of the migration defect not directly tested in this system
    • Downstream actin effectors in migrating neurons not identified
  6. 2020 High

    Showed via conditional knockout that NCKAP1-driven actin polymerization is required for tumor tissue integrity, proliferation, and shaping of the stromal/immune microenvironment in vivo.

    Evidence Melanocyte-lineage Nckap1 knockout in a BRAF(V600E);Pten-loss model with tumor growth, proliferation, collagen, and immune-marker readouts

    PMID:32777214

    Open questions at the time
    • Mechanism linking actin assembly to stromal fibrosis and immune infiltration not dissected
    • Cell-autonomous versus microenvironmental contributions not separated
  7. 2023 Medium

    Established that NCKAP1-mediated actin dynamics are necessary for microglial phagocytosis, with overexpression sufficient to rescue the defect in patient-derived cells.

    Evidence Transcriptomic identification in ALS patient iMGs plus NCKAP1 overexpression rescue and phagocytosis assay

    PMID:37154887

    Open questions at the time
    • Single-lab study without genetic knockout confirmation
    • Connection to WRC subunits in microglia not directly shown
  8. 2026 Medium

    Extended NCKAP1/WRC function to endothelial biology, linking it directly to FAK–paxillin focal adhesion signaling, junction remodeling, barrier formation, and angiogenesis.

    Evidence siRNA knockdown with lamellipodia imaging, phospho-paxillin western blot, endothelial barrier and angiogenesis assays

    PMID:42095096

    Open questions at the time
    • Whether NCKAP1 regulates FAK–paxillin directly or via actin remodeling not separated
    • Single-study mechanistic pathway not yet independently replicated

Open questions

Synthesis pass · forward-looking unresolved questions
  • How disease-associated NCKAP1 missense variants quantitatively alter WRC assembly and downstream actin output in vivo remains unresolved.
  • Purely computational; no mutagenesis or reconstitution performed
  • Predicted affinity changes not validated against cellular WRC stability or actin phenotypes

Mechanism profile

Synthesis pass · controlled-vocabulary classification · explore literature graph →
Molecular activity
GO:0005198 structural molecule activity 2 GO:0060090 molecular adaptor activity 1
Localization
GO:0005856 cytoskeleton 1 GO:0005886 plasma membrane 1
Pathway
R-HSA-1640170 Cell Cycle 2 R-HSA-1266738 Developmental Biology 1 R-HSA-162582 Signal Transduction 1
Complex memberships
WASF3/WAVE complexWAVE regulatory complex (WRC)

Evidence

Reading pass · 9 per-paper findings extracted from the source corpus
Year Finding Method Journal Conf PMIDs
2016 NCKAP1 is a core component of the WASF3 (WAVE) protein complex; silencing NCKAP1 destabilizes the WASF3 complex, prevents RAC1 association with the complex, and suppresses invasion and metastasis of breast, prostate, and colon cancer cells. Stapled peptides targeting the NCKAP1–CYFIP1 interface recapitulate complex destabilization and RAC1 dissociation. siRNA silencing, co-immunoprecipitation, stapled peptide disruption, in vivo spontaneous metastasis model Cancer research High 27432794
2000 Antisense oligonucleotide knockdown of human NCKAP1 transcripts induces apoptosis in neuronal cells, establishing a pro-survival role for NCKAP1 in neurons. Antisense oligonucleotide knockdown, cell viability/apoptosis assay Genomics Medium 10673335
2001 NCKAP1 interacts with hNap1BP, a tyrosine kinase-binding protein that also binds the SH3 domains of c-Abl and Nck, placing NCKAP1 within a Nck-mediated signal transduction network. Yeast two-hybrid screening, binding assays Gene Low 11418237
2019 In hepatocellular carcinoma (HCC) cells, NCKAP1 overexpression upregulates Rb1 and p53 protein levels and inhibits cell-cycle progression into G2/M phase; WASF1 is barely expressed in HCC lines, explaining why the WAVE/WASF1-invasion axis is not operative in this context. NCKAP1 overexpression, western blot for Rb1/p53, cell-cycle analysis by flow cytometry, in vivo xenograft model Cell death & disease Medium 31068575
2020 Mouse in utero electroporation experiments showed that Nckap1 loss-of-function promotes aberrant neuronal migration during early cortical development, demonstrating a direct role for NCKAP1 in neuronal cytoskeletal dynamics and neuronal migration in vivo. In utero electroporation with Nckap1 loss-of-function constructs, cortical migration assay in mouse American journal of human genetics Medium 33157009
2020 Targeted deletion of Nckap1 in the melanocyte lineage in a BRAF(V600E);Pten-loss mouse model delayed tumor onset and progression, slowed proliferation, and caused fibrotic stroma with increased collagen deposition and enhanced immune infiltration, demonstrating that NCKAP1-orchestrated actin polymerization (as part of the SCAR/WAVE complex downstream of RAC1) is required for tumor tissue integrity and cell-cycle progression. Conditional Nckap1 knockout in mouse melanocyte lineage, histopathology, tumor growth measurement, immunohistochemistry for collagen and immune markers The Journal of investigative dermatology High 32777214
2023 Decreased NCKAP1 expression in microglia-like cells (iMGs) from rapidly progressive ALS patients is associated with abnormal actin polymerization and defective phagocytosis; NCKAP1 overexpression was sufficient to rescue impaired phagocytosis in these cells, establishing NCKAP1-mediated actin dynamics as necessary for microglial phagocytic function. Transcriptome analysis of patient-derived iMGs, NCKAP1 overexpression rescue experiment, phagocytosis functional assay Molecular neurobiology Medium 37154887
2025 Computational hotspot analysis of autism-linked missense variants in NCKAP1 and CYFIP2 showed that most variants in the WAVE regulatory complex are located at the NCKAP1–CYFIP2 protein interface and predominantly decrease the binding affinity of NCKAP1 for the rest of the WRC, with some variants having the opposite stabilizing effect; results are consistent with experimental data on WRC stability. Computational hotspot analysis, molecular dynamics/docking of WRC structural models with ASD-linked variants Protein science Low 39660913
2026 Knockdown of NCKAP1 in endothelial cells disrupts the WAVE regulatory complex, impairs lamellipodia-based protrusions, suppresses paxillin phosphorylation (FAK-paxillin signaling), delays endothelial barrier formation, inhibits actin dynamics at intercellular junctions, and restricts angiogenesis, identifying WRC/NCKAP1 as a direct regulator of focal adhesions and endothelial barrier function. siRNA knockdown, lamellipodia imaging, phospho-paxillin western blot, endothelial barrier assay, angiogenesis assay iScience Medium 42095096

Source papers

Stage 0 corpus · 21 papers · ranked by NIH iCite citations
Year Title Journal Citations PMID
2016 The WASF3-NCKAP1-CYFIP1 Complex Is Essential for Breast Cancer Metastasis. Cancer research 66 27432794
1987 Characterization of the yeast HEM2 gene and transcriptional regulation of COX5 and COR1 by heme. The Journal of biological chemistry 66 2445751
2000 Molecular cloning of a novel apoptosis-related gene, human Nap1 (NCKAP1), and its possible relation to Alzheimer disease. Genomics 50 10673335
2001 Isolation of hNap1BP which interacts with human Nap1 (NCKAP1) whose expression is down-regulated in Alzheimer's disease. Gene 35 11418237
2020 NCKAP1 Disruptive Variants Lead to a Neurodevelopmental Disorder with Core Features of Autism. American journal of human genetics 34 33157009
2019 NCKAP1 improves patient outcome and inhibits cell growth by enhancing Rb1/p53 activation in hepatocellular carcinoma. Cell death & disease 34 31068575
2016 MicroRNA-34c-3p promotes cell proliferation and invasion in hepatocellular carcinoma by regulation of NCKAP1 expression. Journal of cancer research and clinical oncology 22 27704267
2020 The RAC1 Target NCKAP1 Plays a Crucial Role in the Progression of Braf;Pten-Driven Melanoma in Mice. The Journal of investigative dermatology 14 32777214
2023 Role of NCKAP1 in the Defective Phagocytic Function of Microglia-Like Cells Derived from Rapidly Progressing Sporadic ALS. Molecular neurobiology 11 37154887
1998 A role for HEM2 in cadmium tolerance. Journal of inorganic biochemistry 8 9654753
2021 miR-140-5p inhibits the proliferation, migration and invasion of vascular smooth muscle cells by suppressing the expression of NCKAP1. Folia histochemica et cytobiologica 7 33560516
1994 The sequence and potential regulatory elements of the HEM2 promoter of Saccharomyces cerevisiae. Yeast (Chichester, England) 7 8203163
2021 Circ_NCKAP1 promotes skin basal cell carcinoma progression by sponging the miR-148b-5p/HSP90 axis. European review for medical and pharmacological sciences 6 34533810
2024 Integrated analysis of disulfidptosis-related genes SLC7A11, SLC3A2, RPN1 and NCKAP1 across cancers. Discover oncology 5 39612126
2025 Molecular basis of the CYFIP2 and NCKAP1 autism-linked variants in the WAVE regulatory complex. Protein science : a publication of the Protein Society 3 39660913
2025 NCKAP1 Inhibits the Progression of Renal Carcinoma via Modulating Immune Responses and the PI3K/AKT/mTOR Signaling Pathway. International journal of molecular sciences 1 40141455
2026 Familial Presentation of a Rare NCKAP1 Splice-Site Variant Associated With a Neurodevelopmental Disorder and Cutaneous Manifestations. American journal of medical genetics. Part A 0 41531171
2026 NCKAP1 coordinates focal adhesion and adherens junction dynamics in endothelial barrier maintenance and angiogenesis. iScience 0 42095096
2025 Case Report: An adult with NCKAP1-related neurodevelopmental disorder and autism spectrum disorder. Frontiers in psychiatry 0 40551827
2025 A De Novo Loss-of-Function NCKAP1 Variant in a Boy with Neurodevelopmental Delay and Congenital Heart Defect. Children (Basel, Switzerland) 0 41462819
2024 miRNA-383-5p Regulated Migration and Invasion of Tumor Cells by Inhibiting NCKAP1 Expression in Gastric Cancer. Biochemical genetics 0 38625593

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