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PCNT

Pericentrin (PCNT) is a large coiled-coil protein encoded by the PCNT located on 21q22.3 in humans, serving as a core component of the pericentriolar material (PCM) in centrosomes. This protein plays a critical role in anchoring microtubule-organizing centers and facilitating proper spindle assembly during and , thereby ensuring accurate segregation and cell-cycle progression. Mutations in PCNT are associated with severe developmental disorders, including microcephalic osteodysplastic type II (MOPDII) and type 4, characterized by extreme intrauterine growth retardation, , and facial dysmorphism due to disrupted centrosomal integrity and DNA damage response pathways. Discovered in the early through studies on centrosomal proteins in mammalian cells, pericentrin was initially identified in tissues as a high-molecular-weight component essential for nucleation. Its human ortholog, PCNT, spans approximately 122 kilobases and produces multiple isoforms via , with the full-length form exceeding 3,000 and localizing primarily to the throughout the . Beyond , PCNT interacts with regulatory kinases such as and CDK1 to modulate PCM maturation and has been implicated in ciliogenesis and neuronal migration during embryonic development. Clinically, biallelic loss-of-function variants in PCNT lead to a spectrum of phenotypes, with MOPDII being the most severe, often accompanied by vascular complications like and resembling . Diagnostic confirmation typically involves genetic sequencing, revealing truncating mutations or deletions that abolish protein function, while animal models, such as Pcnt-knockout mice, recapitulate the growth defects and centrosomal abnormalities observed in patients. Ongoing research explores therapeutic strategies targeting downstream pathways, including ATR kinase signaling, to mitigate the DNA repair deficiencies central to these disorders.

Gene

Genomic Location

The PCNT gene is located on the long arm of human at cytogenetic band 21q22.3. In the GRCh38.p14 primary of the , the spans genomic coordinates 46,324,156 to 46,445,769 on the forward strand, encompassing approximately 122 kb of sequence. This positioning was first mapped through studies identifying the human homolog of the pericentrin between marker PFKL and the of 21q. The comprises 47 coding exons, with the full structure including up to 48 exons when accounting for non-coding regions in certain transcripts. Intron-exon boundaries have been precisely defined through high-throughput genomic sequencing projects, such as those underlying the reference assemblies in databases like NCBI and Ensembl, revealing sites that support multiple transcript variants. Promoter regions upstream of the primary transcription start have similarly been annotated from whole-genome sequencing data, facilitating regulated expression in centrosomal contexts. PCNT exhibits strong evolutionary conservation across species, reflecting its essential role in function. Orthologs are present in diverse mammals, including the Pcnt on , as well as in other vertebrates such as (pcnt) and (PCNT), with sequence similarity exceeding 70% in core domains based on analyses. This conservation underscores the 's ancient origins, traceable through predictions in resources like Ensembl, which identify over 180 orthologs.

Structure and Variants

The PCNT gene features a coding sequence spanning approximately 10 kb, which encodes a protein comprising 3336 amino acids in its primary long isoform (NP_006022.3, from transcript NM_006031.6). This coding region is distributed across 47 exons within the gene's overall genomic span of about 122 kb on chromosome 21q22.3. Alternative splicing of the PCNT pre-mRNA generates multiple transcripts, with two predominant isoforms: the long isoform (PCNT-L) and the short isoform (PCNT-S). The PCNT-L isoform incorporates the full set of coding exons, producing the complete 3336-amino-acid protein essential for centrosomal functions. In contrast, the PCNT-S isoform (NP_001302458.1, from transcript NM_001315529.2) uses an alternate 5' exon and splice junction, resulting in an N-terminal truncation and lack of an internal segment, yielding a 3139-amino-acid protein. This N-terminal truncation in PCNT-S alters the protein's domain architecture while preserving the C-terminal calmodulin-binding and pericentriolar material-targeting motifs shared between the isoforms. The PCNT gene harbors various genetic polymorphisms, including single nucleotide polymorphisms () documented in databases such as dbSNP. For instance, the intronic SNP rs3788265 (G>T) exhibits a minor (MAF) of approximately 0.17 in global populations based on gnomAD genomes data, with higher frequencies observed in East Asian cohorts (MAF ≈ 0.43 in 38KJPN and Korean populations). These polymorphisms, often located in non-coding regions, contribute to across human populations and are tracked for their allele frequencies in resources like the , where the T allele MAF is about 0.19.

Protein

Primary Structure

The pericentrin protein, encoded by the PCNT gene, is characterized by a linear of 3,336 residues in its full-length isoform (PCNT-L or Pcnt B), yielding a calculated of approximately 378 kDa. This extended polypeptide adopts an elongated architecture dominated by coiled-coil motifs, which enable dimerization and functions. reveals a large central coiled-coil domain spanning roughly 1,500 residues, flanked by non-coiled regions, and a smaller C-terminal coiled-coil domain of about 500 . A key structural motif is the pericentrin/AKAP450 centrosomal targeting (PACT) domain, a conserved ~90-amino-acid sequence located near the C-terminus (residues ~3230–3320 in the canonical isoform), which consists of an atypical calmodulin-binding IQ motif followed by a coiled-coil segment. The N-terminal region includes additional coiled-coil segments that contribute to the protein's overall rod-like shape, while the intervening central area exhibits low sequence complexity and is predicted to form a flexible, unstructured linker, facilitating the protein's adaptability in macromolecular assemblies. Alternative splicing of the PCNT pre-mRNA generates multiple isoforms, including the shorter PCNT-S (or Pcnt S), which lacks the C-terminal region containing the microtubule-binding present in PCNT-L, resulting in a reduced molecular weight of ~220 kDa. This isoform arises from variants that exclude specific exons encoding the C-terminal extension, altering the protein's composition while retaining core coiled-coil elements.

Post-Translational Modifications

Pericentrin, encoded by the PCNT gene, is subject to several post-translational modifications that fine-tune its centrosomal functions. is a key regulatory mechanism, particularly during , where it modulates pericentrin's role in centrosome maturation and microtubule organization. Polo-like kinase 1 () phosphorylates pericentrin at serine residues Ser-1235 and Ser-1241 in the C-terminal region, initiating the recruitment of pericentriolar material (PCM) components and ensuring proper spindle pole assembly. This modification occurs specifically at the onset of and is essential for pericentrin's scaffolding activity within the PCM. Although direct evidence for CDK1-mediated phosphorylation sites on human pericentrin remains limited, mitotic kinases such as CDK1 contribute to the overall hyper of pericentrin, enhancing its dynamic interactions in the coiled-coil domains inherited from its primary . Additionally, pericentrin undergoes separase-mediated during mitotic exit, which removes associated proteins like CDK5RAP2 from the and facilitates centriole disengagement, thereby regulating pericentrin's localization post-division. Ubiquitination targets pericentrin for , controlling its protein levels to prevent centrosome overduplication and associated pathologies. In model , UBR-box ligases such as Poe promote the ubiquitination and turnover of pericentrin homologs, a mechanism likely conserved in humans where elevated PCNT levels are implicated in diseases like cancer and ciliopathies. This degradation pathway involves polyubiquitin chains that mark pericentrin for 26S processing, maintaining steady-state abundance during and .

Biological Role

Centrosome Organization

Pericentrin serves as a essential for the assembly and maintenance of the pericentriolar material (PCM) in , organizing the localization of -nucleating components to ensure proper centrosomal function. Through its interactions with centrioles, pericentrin facilitates the structured recruitment of PCM proteins, creating a matrix that supports and anchoring. The recruitment of pericentrin to centrioles is primarily mediated by its conserved C-terminal (pericentrin-AKAP450 centrosomal targeting) domain, which anchors the protein to the wall and positions its extended N-terminal region outward to form a radial . This scaffold directly binds and organizes key PCM constituents, including γ-tubulin ring complexes (γ-TuRCs), thereby enabling the PCM to function as an efficient platform for microtubule assembly. Depletion studies demonstrate that without pericentrin, γ-TuRC recruitment is severely impaired, leading to disorganized PCM architecture. During , pericentrin contributes to the establishment of the as the primary microtubule-organizing center (MTOC), promoting the and stabilization of that support intracellular and cellular . Its integrates PCM components to maintain a compact, functional MTOC capable of generating arrays even in the absence of mitotic activation. Mathematical modeling of centrosome maturation, based on conserved mechanisms in model organisms and consistent with observations in cells, highlights pericentrin's role in driving exponential PCM expansion through autocatalytic recruitment kinetics, where bound pericentrin molecules catalyze the addition of further PCM proteins via mechanisms. These models, often described by rate equations for or scaffold oligomerization, predict rapid PCM growth initiated by pericentrin anchoring, ensuring timely amplification of nucleation capacity. For instance, simulations show that pericentrin-like scaffolds enable droplet-like PCM accumulation, with recruitment rates following exponential dynamics dependent on initial centriole-bound concentrations.

Cell Division Processes

Pericentrin (PCNT) plays a pivotal role in mitotic progression through its phosphorylation-dependent recruitment to spindle poles. During early , polo-like kinase 1 () phosphorylates PCNT at specific serine residues, such as S1235 and S1241, which facilitates its accumulation at and initiates centrosome maturation. This event is essential for the expansion of pericentriolar material (PCM) and the subsequent organization of into a bipolar spindle, ensuring accurate chromosome segregation. Mutants resistant to PLK1 phosphorylation exhibit defective centrosome maturation and impaired spindle assembly, underscoring PCNT's temporal regulation in . PCNT further contributes to spindle formation by interacting with microtubule motors, particularly cytoplasmic , to promote formation and centrosome positioning. Through direct binding to the light intermediate chain via its C-terminal region, PCNT anchors at centrosomes, enabling the motor to generate forces that organize astral and separate centrosomes for bipolar establishment. This interaction is mitosis-specific, as PCNT- complexes localize to spindle poles to nucleate and focus . Defects in PCNT, such as depletion or , disrupt these interactions, leading to monopolar characterized by failed centrosome separation and disorganized microtubule , which compromise mitotic fidelity. In , PCNT facilitates by coordinating disorganization and movement toward the cytokinetic bridge during the pre-abscission phase. PCNT enrichment at the mother , regulated by Rab11 trafficking, drives centrosome reorientation and partial disassembly, which clears the path for midbody constriction and membrane ingression. Impairment of PCNT, as observed in heterozygous mutants, results in delayed centrosome , failure, and increased binucleation, highlighting its necessity for completing .

Developmental Roles

Beyond cell division, PCNT is implicated in ciliogenesis, where it contributes to the formation and function of primary cilia as microtubule-organizing centers in non-dividing cells. Additionally, PCNT plays a role in neuronal migration during embryonic development by supporting function in directed cell movement and polarity establishment.

Clinical Significance

Associated Disorders

Mutations in the PCNT gene are primarily associated with microcephalic osteodysplastic type II (MOPDII), a severe form of characterized by extreme intrauterine and postnatal growth retardation, profound , and distinctive skeletal dysplasia including with an average adult height of approximately 100 cm. Additional clinical features include facial dysmorphism with a prominent and , as well as complications such as cerebrovascular anomalies like and increased risk of aneurysms. MOPDII was first linked to biallelic loss-of-function mutations in PCNT in 2008, with early reports identifying 29 such mutations across affected families. Hypomorphic alleles in PCNT can result in milder phenotypes, including isolated or variants resembling , which feature proportionate , milder , and subtle skeletal abnormalities without the full spectrum of MOPDII dysmorphology. For instance, some patients initially diagnosed with have been reclassified under the MOPDII spectrum upon genetic confirmation of PCNT variants, highlighting phenotypic overlap. PCNT-related disorders follow an autosomal recessive inheritance pattern, requiring biallelic for disease manifestation. The prevalence is extremely low, estimated at less than 1 in 1,000,000 individuals, reflecting the rarity of reported cases worldwide. Recent studies as of 2025 have identified novel pathogenic in PCNT in patients from diverse populations, such as four pediatric cases, further delineating the . Examples of pathogenic include frameshift such as c.3461_3462del, though detailed molecular analysis is addressed elsewhere.

Molecular Pathogenesis

Truncating mutations in the PCNT gene, such as variants, result in loss-of-function alleles that prevent the production of full-length pericentrin protein or produce truncated forms incapable of proper targeting. These mutations abolish pericentrin's localization to the , disrupting its role as a scaffold for pericentriolar material (PCM) assembly. For instance, the R2918X impairs the interaction between pericentrin and Cep57, a key regulator of PCM expansion, leading to disorganized PCM structure during . Consequently, PCM fragmentation occurs, characterized by reduced recruitment of PCM components like γ-tubulin, which impairs nucleation and organization at spindle poles. This centrosomal dysfunction induces mitotic delays, including prolonged and stages due to assembly defects and misalignment. In patient-derived cells harboring PCNT truncating mutations, such as those from Majewski osteodysplastic type II (MOPDII), mitotic s exhibit fragmentation and asymmetry, triggering checkpoint activation and increased or . These cellular aberrations reduce overall proliferative capacity, particularly in rapidly dividing tissues, contributing to the disease phenotype at the organismal level. In the context of neurogenesis, PCNT disruptions diminish the proliferative output of neural progenitor cells, leading to microcephaly through depleted neuronal pools. Mouse models with Pcnt mutations demonstrate reduced , with disproportionate impacts on structures like the , alongside increased and DNA damage in progenitors despite unaltered rates. This results in impaired and layering, as evidenced by ectopic accumulation, ultimately yielding a smaller with fewer neurons. Although exact reductions vary, Pcnt-deficient mice exhibit overall decreases observed in severe models, underscoring the role of centrosomal integrity in progenitor expansion. Systemically, PCNT mutations disrupt in the growth plates of long bones, contributing to . The loss of pericentrin impairs proliferation and in the hypertrophic zone, leading to disorganized columnar architecture and delayed mineralization. In MOPDII, this manifests as metaphyseal and shortened limbs due to reduced longitudinal , as truncating variants compromise the mitotic fidelity required for sustained chondrogenesis.

Interactions

Key Binding Partners

Pericentrin (PCNT) directly binds to CDK5RAP2, a centrosomal protein involved in organization, through interactions between the central of PCNT and the C-terminal of CDK5RAP2, as demonstrated by co-immunoprecipitation assays in neuronal cells. This binding facilitates the recruitment of CDK5RAP2 to centrosomes, with both proteins featuring multiple coiled-coil domains that likely contribute to their association. PCNT associates with polo-like kinase 1 () during , where phosphorylates PCNT at specific serine residues, including S1235 and S1241, to promote centrosome maturation and pericentriolar material expansion. These phosphorylation events, identified through assays and phosphoresistant mutant analysis, are essential for the timely recruitment of other centrosomal components. The C-terminal domain of PCNT mediates direct interactions with components of the γ-tubulin ring complex (γ-TuRC), particularly γ-complex proteins 2 (GCP2) and 3 (GCP3), as confirmed by yeast two-hybrid screens and co-immunoprecipitation. These bindings anchor γ-TuRCs at spindle poles, supporting microtubule nucleation without direct interaction with γ-tubulin itself.

Functional Networks

Pericentrin (PCNT) plays a central role in the pericentriolar material (PCM) scaffold, anchoring γ-tubulin ring complexes (γ-TuRCs) to centrosomes during to initiate , which is subsequently amplified by the augmin complex for robust assembly. This integration occurs through PCNT's interaction with γ-tubulin complex proteins (GCPs), ensuring mitosis-specific recruitment of γ-TuRCs to spindle poles and promoting organization essential for proper chromosome segregation. Augmin, in turn, binds to these newly nucleated and recruits additional γ-TuRCs, enabling branching that amplifies density within the mitotic by up to several-fold, as observed in vertebrate cells. In centrosomal signaling hubs, PCNT facilitates the organization of kinase cascades critical for spindle checkpoint function, particularly through pathways involving Aurora A kinase. PCNT-dependent recruitment of Cep192 to centrosomes positions Aurora A for autophosphorylation and subsequent activation of Polo-like kinase 1 (Plk1), which drives PCM expansion and microtubule nucleation while contributing to the spindle assembly checkpoint (SAC) by stabilizing Mad2 at unattached kinetochores. This signaling hub ensures timely mitotic progression, with Aurora A inhibition leading to SAC defects and premature anaphase onset in human cells. Network analysis using the database reveals PCNT's extensive connections within centrosomal protein families, with top interactors including CEP192 (score 0.999), CEP215 (score 0.998), (score 0.997), CDK5RAP2 (score 0.996), and (score 0.995), many of which are centrosomal proteins (CEPs) involved in organization. Functional enrichment analysis of the PCNT interactome shows significant overrepresentation of (GO) terms related to , such as "mitotic cell cycle" (GO:0000278; FDR 8.3e-3, 5/631 genes) and " organization" (GO:0031023; FDR 1.2e-4), underscoring PCNT's embedded role in mitotic regulatory networks.

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