Details for: APBA2

Gene ID: 321

Gene Type:  Protein-coding  - A gene that serves as a template for producing a messenger RNA (mRNA) molecule, which is then translated into a functional protein.

Symbol: APBA2

Ensembl ID: ENSG00000034053

Description: amyloid beta precursor protein binding family A member 2

Selected Context(s):  Overall

Cell Significance Landscape

Contexts:

Associated with

Significant Cells

Cell Significance Index (CSI) scores for the chosen context(s)

  • CD4-positive, alpha-beta memory T cell CL0000897
    CSI 36.17
    rCSI 25.97%
    PRS 99.57
  • sncg GABAergic cortical interneuron CL4023015
    CSI 31.38
    rCSI 50.47%
    PRS 93.61
  • pvalb GABAergic cortical interneuron CL4023018
    CSI 31.3
    rCSI 38.94%
    PRS 92.17
  • L2/3-6 intratelencephalic projecting glutamatergic neuron CL4023040
    CSI 24.49
    rCSI 59.51%
    PRS 92.11
  • VIP GABAergic cortical interneuron CL4023016
    CSI 24.02
    rCSI 28.69%
    PRS 93.43
  • sst GABAergic cortical interneuron CL4023017
    CSI 21.27
    rCSI 27.42%
    PRS 93.9
  • lamp5 GABAergic cortical interneuron CL4023011
    CSI 21.25
    rCSI 35.67%
    PRS 93.71
  • progenitor cell CL0011026
    CSI 19.5
    rCSI 41.47%
    PRS 94.9
  • L5 extratelencephalic projecting glutamatergic cortical neuron CL4023041
    CSI 16.83
    rCSI 60.55%
    PRS 92.32
  • chandelier pvalb GABAergic cortical interneuron CL4023036
    CSI 16.78
    rCSI 52.48%
    PRS 94.46
  • mature T cell CL0002419
    CSI 16.21
    rCSI 12.61%
    PRS 99.42
  • L6b glutamatergic cortical neuron CL4023038
    CSI 15.9
    rCSI 49.69%
    PRS 93.84
  • near-projecting glutamatergic cortical neuron CL4023012
    CSI 13.46
    rCSI 50.87%
    PRS 93.15
  • glioblast CL0000030
    CSI 10.6
    rCSI 16.92%
    PRS 94.81
  • caudal ganglionic eminence derived cortical interneuron CL4023064
    CSI 9.93
    rCSI 17.53%
    PRS 93.38
  • corticothalamic-projecting glutamatergic cortical neuron CL4023013
    CSI 9.03
    rCSI 53.19%
    PRS 93.37
  • L2/3 intratelencephalic projecting glutamatergic neuron CL4030059
    CSI 9.01
    rCSI 19.54%
    PRS 91.6
  • naive thymus-derived CD8-positive, alpha-beta T cell CL0000900
    CSI 8.71
    rCSI 6.12%
    PRS 99.34
  • neuron CL0000540
    CSI 8.7
    rCSI 23.17%
    PRS 90.85
  • interneuron CL0000099
    CSI 8.38
    rCSI 16.82%
    PRS 95.89
  • H2 horizontal cell CL0004218
    CSI 7.97
    rCSI 39.64%
    PRS 94.65
  • differentiation-committed oligodendrocyte precursor CL4023059
    CSI 7.93
    rCSI 14.41%
    PRS 94.9
  • double negative thymocyte CL0002489
    CSI 7.54
    rCSI 5.25%
    PRS 99.63
  • alpha-beta T cell CL0000789
    CSI 7.47
    rCSI 8.75%
    PRS 99.4
  • radial glial cell CL0000681
    CSI 7.03
    rCSI 9.77%
    PRS 97.65
  • neural crest cell CL0011012
    CSI 7.01
    rCSI 5.54%
    PRS 96.09
  • neuroblast (sensu Nematoda and Protostomia) CL0000338
    CSI 6.75
    rCSI 7.79%
    PRS 94.68
  • neuroblast (sensu Vertebrata) CL0000031
    CSI 6.57
    rCSI 8.43%
    PRS 96.58
  • glial cell CL0000125
    CSI 6.55
    rCSI 24.96%
    PRS 94.84
  • L4 intratelencephalic projecting glutamatergic neuron CL4030063
    CSI 6.3
    rCSI 15.08%
    PRS 92.75
  • inhibitory interneuron CL0000498
    CSI 6.02
    rCSI 13.9%
    PRS 93.98
  • glutamatergic neuron CL0000679
    CSI 5.74
    rCSI 11.8%
    PRS 91.39
  • central nervous system neuron CL2000029
    CSI 5.67
    rCSI 41.66%
    PRS 94.46
  • naive T cell CL0000898
    CSI 5.64
    rCSI 3.93%
    PRS 99.69
  • retinal ganglion cell CL0000740
    CSI 5.52
    rCSI 12.18%
    PRS 93.35
  • activated CD8-positive, alpha-beta T cell CL0000906
    CSI 5.5
    rCSI 5.4%
    PRS 98.66
  • oligodendrocyte precursor cell CL0002453
    CSI 5.39
    rCSI 11.87%
    PRS 88.29
  • central memory CD4-positive, alpha-beta T cell CL0000904
    CSI 5.02
    rCSI 2.96%
    PRS 99.81
  • macroglial cell CL0000126
    CSI 4.88
    rCSI 12.54%
    PRS 95.8
  • cerebral cortex GABAergic interneuron CL0010011
    CSI 4.85
    rCSI 14.31%
    PRS 97.63
  • neural progenitor cell CL0011020
    CSI 4.79
    rCSI 21.06%
    PRS 91.84
  • L5/6 near-projecting glutamatergic neuron CL4030067
    CSI 4.62
    rCSI 15.17%
    PRS 91.95
  • activated type II NK T cell CL0000931
    CSI 4.47
    rCSI 5.03%
    PRS 99.19
  • cerebral cortex neuron CL0010012
    CSI 4.28
    rCSI 17.46%
    PRS 93.58
  • activated CD4-positive, alpha-beta T cell CL0000896
    CSI 4.25
    rCSI 3.93%
    PRS 99.42
  • lung resident memory CD8-positive, alpha-beta T cell CL4033039
    CSI 4.19
    rCSI 10.83%
    PRS 99.2
  • mature astrocyte CL0002627
    CSI 3.86
    rCSI 16.42%
    PRS 95.05
  • cerebellar granule cell CL0001031
    CSI 3.84
    rCSI 5.64%
    PRS 95.4
  • glycinergic amacrine cell CL4030028
    CSI 3.65
    rCSI 9.5%
    PRS 94.11
  • Bergmann glial cell CL0000644
    CSI 3.6
    rCSI 4.92%
    PRS 94.45
  • dopaminergic neuron CL0000700
    CSI 3.48
    rCSI 19.67%
    PRS 92.59
  • retina horizontal cell CL0000745
    CSI 2.86
    rCSI 4.35%
    PRS 96.28
  • astrocyte of the cerebral cortex CL0002605
    CSI 2.84
    rCSI 6.37%
    PRS 93.56
  • effector memory CD8-positive, alpha-beta T cell CL0000913
    CSI 2.82
    rCSI 2.57%
    PRS 99.48
  • peripheral nervous system neuron CL2000032
    CSI 2.71
    rCSI 3.69%
    PRS 95.36
  • ON midget ganglion cell CL4033046
    CSI 2.54
    rCSI 51.76%
    PRS 93.26
  • direct pathway medium spiny neuron CL4023026
    CSI 2.38
    rCSI 56.99%
    PRS 91.45
  • OFF midget ganglion cell CL4033047
    CSI 2.36
    rCSI 48.14%
    PRS 93.42
  • serotonergic neuron CL0000850
    CSI 2.22
    rCSI 9.93%
    PRS 89.65
  • memory T cell CL0000813
    CSI 2.22
    rCSI 4.27%
    PRS 99.31
  • indirect pathway medium spiny neuron CL4023029
    CSI 2.21
    rCSI 53.25%
    PRS 91.19
  • GABAergic amacrine cell CL4030027
    CSI 2.19
    rCSI 7.52%
    PRS 91.3
  • GABAergic neuron CL0000617
    CSI 2.18
    rCSI 7.32%
    PRS 90.96
  • medium spiny neuron CL1001474
    CSI 1.88
    rCSI 16.23%
    PRS 94.08
  • ON parasol ganglion cell CL4033052
    CSI 1.72
    rCSI 24.47%
    PRS 93.47
  • H1 horizontal cell CL0004217
    CSI 1.67
    rCSI 6.62%
    PRS 94.05
  • cerebellar neuron CL1001611
    CSI 1.64
    rCSI 14.4%
    PRS 90.88
  • amacrine cell CL0000561
    CSI 1.51
    rCSI 4.38%
    PRS 94.11
  • basket cell CL0000118
    CSI 1.48
    rCSI 9.27%
    PRS 86.9
  • midbrain dopaminergic neuron CL2000097
    CSI 1.25
    rCSI 7.98%
    PRS 94.07
  • GABAergic interneuron CL0011005
    CSI 1.08
    rCSI 17.08%
    PRS 97.18
  • diffuse bipolar 3a cell CL4033029
    CSI 1.06
    rCSI 7.23%
    PRS 92.85
  • Cajal-Retzius cell CL0000695
    CSI 1.04
    rCSI 8.14%
    PRS 97.54

Cell ID: Standard Cell Ontology term used for mapping and comparing cells across experiments. Ensures consistency in analyzing cellular functions across tissues.
Fold Change: Represents the ratio of the current Cell Significance Index to the Cell Significance Index Threshold, indicating how much the gene expression has changed compared to a baseline.
Cell Significance Index: Reflects how strongly a gene is expressed in this specific cell.

Cell ID: Standard Cell Ontology term used for mapping and comparing cells across experiments. Ensures consistency in analyzing cellular functions across tissues.
Fold Change: Represents the ratio of the current Cell Significance Index to the Cell Significance Index Threshold, indicating how much the gene expression has changed compared to a baseline.
Cell Significance Index: Reflects how strongly a gene is expressed in this cell type. Calculated using techniques like effect size estimation and bootstrapping for reliability.

Cell ID: Standard Cell Ontology term used for mapping and comparing cells across experiments. Ensures consistency in analyzing cellular functions across tissues.
Fold Change: Represents the ratio of the current Cell Significance Index to the Cell Significance Index Threshold, indicating how much the gene expression has changed compared to a baseline.
Cell Significance Index: Reflects how strongly a gene is expressed in this cell type. Calculated using techniques like effect size estimation and bootstrapping for reliability.
Network Configuration

Explore relationships of the current gene. Select an Interaction Source: 'ONTOLOGY' for shared pathways (GO/Reactome) or 'STRING' for protein-protein interactions. Further refine by selecting context genes and comparing Cell Significance Index (CSI) scores between baseline and target cell types and their specific contexts.

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Comma-separated if multiple.

Legend:
  • Query Gene
  • Node Color (Target Cell CSI, relative to current network):
    • Very High
    • High
    • Medium
    • Low
    • Very Low
    • CSI N/A
  • Node Size: Proportional to Target Cell CSI magnitude
  • STRING PPI Edge
  • Shared Pathway Edge (ONTOLOGY)

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Other Information

This section provides additional information about the gene, including a description generated by an AI language model and details about associated proteins.

## Summary [APBA2](/details-gene/321) (amyloid beta precursor protein binding family A member 2) is a protein-coding gene located on chromosome 15q13.1. It functions primarily in the nervous system, where it is involved in modulating synaptic transmission and protein transport. The encoded protein binds to the amyloid precursor protein (APP), playing a role in regulating its processing and the subsequent secretion of amyloid-beta peptides, a process central to the pathology of Alzheimer's disease ([Link](https://doi.org/10.1074/jbc.273.24.14761), [Link](https://doi.org/10.1074/jbc.274.4.2243)). **Overall**, expression data indicate that [APBA2](/details-gene/321) is a significant gene in a diverse array of cortical neurons, including both glutamatergic and GABAergic subtypes. Unexpectedly, it also shows high significance in [CD4-positive, alpha-beta memory T cells](/details-cell/CL0000897), suggesting a potential, lesser-known role in the immune system. ## Cellular Roles and Expression Landscape The expression profile of [APBA2](/details-gene/321) firmly establishes its importance within the central nervous system. **Overall**, it demonstrates high significance across a wide spectrum of cortical neurons. This includes various classes of inhibitory interneurons, such as [sncg GABAergic cortical interneurons](/details-cell/CL4023015), [pvalb GABAergic cortical interneurons](/details-cell/CL4023018), and [VIP GABAergic cortical interneurons](/details-cell/CL4023016), as well as excitatory neurons like [L2/3-6 intratelencephalic projecting glutamatergic neurons](/details-cell/CL4023040) and [L5 extratelencephalic projecting glutamatergic cortical neurons](/details-cell/CL4023041). This broad expression pattern suggests a fundamental role in maintaining synaptic function and neuronal protein trafficking across different neuronal circuits. Intriguingly, the cell type with the highest significance score is the [CD4-positive, alpha-beta memory T cell](/details-cell/CL0000897) (CSI: 36.17). This finding is notable given the gene's well-characterized neuronal functions and may indicate a novel, or "moonlighting," role for [APBA2](/details-gene/321) in the adaptive immune system, potentially related to protein trafficking or signaling at the immunological synapse. Furthermore, its expression in [progenitor cells](/details-cell/CL0011026) and [glioblasts](/details-cell/CL0000030) is consistent with its annotated roles in nervous system development and organism growth. ## Pathways and Molecular Function The functions of [APBA2](/details-gene/321) are deeply rooted in synaptic biology and protein-protein interactions. Gene Ontology annotations highlight its involvement in [chemical synaptic transmission](/details-gene/GO:0007268), [nervous system development](/details-gene/GO:0007399), and [protein transport](/details-gene/GO:0015031). At the molecular level, its key function is [amyloid-beta binding](/details-gene/GO:0001540), which directly relates to its clinical association with Alzheimer's disease ([602712](https://omim.org/entry/602712)). Its localization is specified to synaptic components, including the [presynapse](/details-gene/GO:0098793) and [dendritic spine](/details-gene/GO:0043197), which aligns with its high expression in neurons. Reactome pathway analysis further reinforces this, placing [APBA2](/details-gene/321) within the [Neuronal system](/details-gene/R-HSA-112316) and, more specifically, in pathways governing [Protein-protein interactions at synapses](/details-gene/R-HSA-6794362) and [Neurexins and neuroligins](/details-gene/R-HSA-6794361). Research has shown that the encoded protein, also known as X11alpha, interacts with APP to slow its processing, thereby reducing the secretion of amyloid-beta peptides ([Link](https://doi.org/10.1074/jbc.273.24.14761)). It is also classified as a Munc18-interacting protein (Mint), implicating it in the regulation of synaptic vesicle exocytosis ([Link](https://doi.org/10.1074/jbc.272.50.31459)). ## Research Directions The available data point to several promising avenues for future research, particularly concerning its role outside of classical neurobiology and its therapeutic potential in neurodegeneration. **Testable Hypotheses:** 1. Given its high significance in both excitatory glutamatergic and inhibitory GABAergic neurons, [APBA2](/details-gene/321) likely functions as a key regulator of synaptic homeostasis. We hypothesize that pathogenic loss-of-function variants in [APBA2](/details-gene/321) disrupt the excitatory/inhibitory balance in cortical circuits, potentially contributing to the etiology of seizure disorders or the synaptic dysfunction observed in early Alzheimer's disease. 2. The high CSI score in [CD4-positive, alpha-beta memory T cells](/details-cell/CL0000897) suggests a previously unappreciated function in immunology. We hypothesize that [APBA2](/details-gene/321) participates in protein trafficking to the immunological synapse, analogous to its role at the neuronal presynapse, and is therefore critical for efficient T cell activation, cytokine secretion, and the establishment of long-term immune memory. **Key Experimental Approach:** To test the second hypothesis regarding the immunological function of [APBA2](/details-gene/321), a targeted gene knockout could be performed in primary human CD4+ T cells using CRISPR-Cas9 technology. Following *in vitro* differentiation into memory T cell subsets, the functional consequences of [APBA2](/details-gene/321) deletion could be assessed. Key readouts would include TCR-mediated signaling activation (e.g., phosphorylation of ZAP70 and LCK), profiling of cytokine secretion (e.g., IFN-gamma, IL-2) using multiplex assays, and quantification of immunological synapse formation and stability with antigen-presenting cells via high-resolution confocal microscopy. **Therapeutic Potential:** [APBA2](/details-gene/321) presents a compelling therapeutic target for Alzheimer's disease. Since existing studies suggest its interaction with APP reduces the production of pathogenic amyloid-beta peptides ([Link](https://doi.org/10.1074/jbc.273.24.14761)), a therapeutic strategy would likely focus on **activation** or stabilization. Small molecules designed to enhance the binding affinity between [APBA2](/details-gene/321) and APP could slow the progression of amyloid pathology. However, its widespread and critical role across numerous neuronal subtypes necessitates caution, as systemic modulation could lead to unintended neurological side effects. A targeted delivery system or a deep understanding of its cell-type-specific regulation would be crucial for developing a safe and effective therapeutic.

Genular Protein ID: 3676391037

Symbol: APBA2_HUMAN

Name: Amyloid-beta A4 precursor protein-binding family A member 2

UniProtKB Accession Codes:

Database IDs:

Citations:

PubMed ID: 9614075

Title: The X11alpha protein slows cellular amyloid precursor protein processing and reduces Abeta40 and Abeta42 secretion.

PubMed ID: 9614075

DOI: 10.1074/jbc.273.24.14761

PubMed ID: 9890987

Title: Interaction of a neuron-specific protein containing PDZ domains with Alzheimer's amyloid precursor protein.

PubMed ID: 9890987

DOI: 10.1074/jbc.274.4.2243

PubMed ID: 16572171

Title: Analysis of the DNA sequence and duplication history of human chromosome 15.

PubMed ID: 16572171

DOI: 10.1038/nature04601

PubMed ID: 15489334

Title: The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC).

PubMed ID: 15489334

DOI: 10.1101/gr.2596504

PubMed ID: 9395480

Title: Mints, Munc18-interacting proteins in synaptic vesicle exocytosis.

PubMed ID: 9395480

DOI: 10.1074/jbc.272.50.31459

PubMed ID: 9110174

Title: Large-scale concatenation cDNA sequencing.

PubMed ID: 9110174

DOI: 10.1101/gr.7.4.353

PubMed ID: 10833507

Title: Regulation of X11L-dependent amyloid precursor protein metabolism by XB51, a novel X11L-binding protein.

PubMed ID: 10833507

DOI: 10.1074/jbc.c000302200

PubMed ID: 19413330

Title: Lys-N and trypsin cover complementary parts of the phosphoproteome in a refined SCX-based approach.

PubMed ID: 19413330

DOI: 10.1021/ac9004309

PubMed ID: 23186163

Title: Toward a comprehensive characterization of a human cancer cell phosphoproteome.

PubMed ID: 23186163

DOI: 10.1021/pr300630k

Sequence Information:

  • Length: 749
  • Mass: 82512
  • Checksum: C15AE9CFAEF51D85
  • Sequence:
  • MAHRKLESVG SGMLDHRVRP GPVPHSQEPE SEDMELPLEG YVPEGLELAA LRPESPAPEE 
    QECHNHSPDG DSSSDYVNNT SEEEDYDEGL PEEEEGITYY IRYCPEDDSY LEGMDCNGEE 
    YLAHSAHPVD TDECQEAVEE WTDSAGPHPH GHEAEGSQDY PDGQLPIPED EPSVLEAHDQ 
    EEDGHYCASK EGYQDYYPEE ANGNTGASPY RLRRGDGDLE DQEEDIDQIV AEIKMSLSMT 
    SITSASEASP EHGPEPGPED SVEACPPIKA SCSPSRHEAR PKSLNLLPEA KHPGDPQRGF 
    KPKTRTPEER LKWPHEQVCN GLEQPRKQQR SDLNGPVDNN NIPETKKVAS FPSFVAVPGP 
    CEPEDLIDGI IFAANYLGST QLLSERNPSK NIRMMQAQEA VSRVKRMQKA AKIKKKANSE 
    GDAQTLTEVD LFISTQRIKV LNADTQETMM DHALRTISYI ADIGNIVVLM ARRRMPRSAS 
    QDCIETTPGA QEGKKQYKMI CHVFESEDAQ LIAQSIGQAF SVAYQEFLRA NGINPEDLSQ 
    KEYSDIINTQ EMYNDDLIHF SNSENCKELQ LEKHKGEILG VVVVESGWGS ILPTVILANM 
    MNGGPAARSG KLSIGDQIMS INGTSLVGLP LATCQGIIKG LKNQTQVKLN IVSCPPVTTV 
    LIKRPDLKYQ LGFSVQNGII CSLMRGGIAE RGGVRVGHRI IEINGQSVVA TAHEKIVQAL 
    SNSVGEIHMK TMPAAMFRLL TGQETPLYI

Genular Protein ID: 841521375

Symbol: Q59G28_HUMAN

Name: N/A

UniProtKB Accession Codes:

Database IDs:

Sequence Information:

  • Length: 752
  • Mass: 82769
  • Checksum: 7309ABB550871C43
  • Sequence:
  • TTAMAHRKLE SVGSGMLDHR VRPGPVPHSQ EPESEDMELP LEGYVPEGLE LAALRPESPA 
    PEEQECHNHS PDGDSSSDYV NNTSEEEDYD EGLPEEEEGI TYYIRYCPED DSYLEGMDCN 
    GEEYLAHSAH PVDTDECQEA VEEWTDSAGP HPHGHEAEGS QDYPDGQLPI PEDEPSVLEA 
    HDQEEDGHYC ASKEGYQDYY PEEANGNTGA SPYRLRRGDG DLEDQEEDID QIVAEIKMSL 
    SMTSITSASE ASPEHGPEPG PEDSVEACPP IKASCSPSRH EARPKSLNLL PEAKHPGDPQ 
    RGFKPKTRTP EERPKWPHEQ VCNGLEQPRK QQRSDLNGPV DNNNIPETKK VASFPSFVAV 
    PGPCEPEDLI DGIIFAANYL GSTQLLSERN PSKNIRMMQA QEAVSRVKRM QKAAKIKKKA 
    NSEGDAQTLT EVDLFISTQR IKVLNADTQE TMMDHALRTI SYIADIGNIV VLMARRRMPR 
    SASQDCIETT PGAQEGKKQY KMICHVFESE DAQLIAQSIG QAFSVAYQEF LRANGINPED 
    LSQKEYSDII NTQEMYNDDL IHFSNSENCK ELQLEKHKGE ILGVVVVESG WGSILPTVIL 
    ANMMNGGPAA RSGKLSIGDQ IMSINGTSLV GLPLATCQGI IKGLKNQTQV KLNIVSCPPV 
    TTVLIKRPDL KYQLGFSVQN GIICSLMRGG IAERGGVRVG HRIIEINGQS VVATAHEKIV 
    QALSNSVGEI HMKTMPAAMF RLLTGQETPL YI