ATP5PD Gene

Name ATP synthase peripheral stalk subunit d
Description Mitochondrial ATP synthase catalyzes ATP synthesis, utilizing an electrochemical gradient of protons across the inner membrane during oxidative phosphorylation. It is composed of two linked multi-subunit complexes: the soluble catalytic core, F1, and the membrane-spanning component, Fo, which comprises the proton channel. The F1 complex consists of 5 different subunits (alpha, beta, gamma, delta, and epsilon) assembled in a ratio of 3 alpha, 3 beta, and a single representative of the other 3. The Fo seems to have nine subunits (a, b, c, d, e, f, g, F6 and 8). This gene encodes the d subunit of the Fo complex. Alternatively spliced transcript variants encoding different isoforms have been identified for this gene. In addition, three pseudogenes are located on chromosomes 9, 12 and 15. [provided by RefSeq, Jun 2010]
Summary
{"type": "root", "children": [{"type": "p", "children": [{"type": "t", "text": "\n ATP5PD, which encodes a subunit of the mitochondrial ATP synthase complex (often referred to as ATP5H or the d subunit), plays a critical role in oxidative phosphorylation by contributing to the assembly, stability, and function of the enzyme complex responsible for cellular ATP production. Alterations in ATP5PD expression influence mitochondrial bioenergetics under various stress conditions. For example, genetic variation at the ATP5H/KCTD2 locus has been implicated in Alzheimer’s disease, where proper ATP synthase function is essential not only for adequate ATP generation but also for maintaining neuronal membrane potential and counteracting hyperpolarization during cellular stress."}, {"type": "fg", "children": [{"type": "fg_f", "ref": "1"}]}, {"type": "t", "text": " Similarly, reduced ATP5PD protein levels observed in models of spinocerebellar ataxia type‐1 correlate with decreased ATP synthesis and broader disruptions in mitochondrial energy metabolism, suggesting that even modest dysregulation of this subunit can lead to impaired neuronal function."}, {"type": "fg", "children": [{"type": "fg_f", "ref": "2"}]}, {"type": "t", "text": " In addition, transcriptomic analyses in late‐onset Alzheimer’s disease have identified differential expression of ATP5PD alongside other mitochondrial genes, reinforcing its role as part of the broader mitochondrial dysfunction that characterizes neurodegenerative pathology."}, {"type": "fg", "children": [{"type": "fg_f", "ref": "3"}]}, {"type": "t", "text": " Furthermore, alterations in ATP5PD expression in gastrointestinal tissues—such as elevated levels observed in the colonic mucosa of patients with irritable bowel syndrome with diarrhea—appear to be associated with abnormal ATP levels and disrupted energy metabolism, highlighting its importance not only in the central nervous system but also in peripheral tissues."}, {"type": "fg", "children": [{"type": "fg_f", "ref": "4"}]}, {"type": "t", "text": "\n "}]}, {"type": "t", "text": "\n "}, {"type": "p", "children": [{"type": "t", "text": "\n Together, these findings underscore that ATP5PD is integral to the maintenance of mitochondrial function and cellular energy homeostasis. Its dysregulation is linked to a spectrum of disorders—ranging from neurodegenerative diseases to gastrointestinal dysfunction—by modulating ATP production and cellular responses to metabolic stress.\n "}]}, {"type": "rg", "children": [{"type": "r", "ref": 1, "children": [{"type": "t", "text": "M Boada, C Antúnez, R Ramírez-Lorca, et al. "}, {"type": "b", "children": [{"type": "t", "text": "ATP5H/KCTD2 locus is associated with Alzheimer's disease risk."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "Mol Psychiatry (2014)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1038/mp.2013.86"}], "href": "https://doi.org/10.1038/mp.2013.86"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "23857120"}], "href": "https://pubmed.ncbi.nlm.nih.gov/23857120"}]}, {"type": "r", "ref": 2, "children": [{"type": "t", "text": "Ivelisse Sánchez, Eudald Balagué, Antoni Matilla-Dueñas "}, {"type": "b", "children": [{"type": "t", "text": "Ataxin-1 regulates the cerebellar bioenergetics proteome through the GSK3β-mTOR pathway which is altered in Spinocerebellar ataxia type 1 (SCA1)."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "Hum Mol Genet (2016)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1093/hmg/ddw242"}], "href": "https://doi.org/10.1093/hmg/ddw242"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "27466200"}], "href": "https://pubmed.ncbi.nlm.nih.gov/27466200"}]}, {"type": "r", "ref": 3, "children": [{"type": "t", "text": "Shubhabrata Mukherjee, Joshua C Russell, Daniel T Carr, et al. "}, {"type": "b", "children": [{"type": "t", "text": "Systems biology approach to late-onset Alzheimer's disease genome-wide association study identifies novel candidate genes validated using brain expression data and Caenorhabditis elegans experiments."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "Alzheimers Dement (2017)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1016/j.jalz.2017.01.016"}], "href": "https://doi.org/10.1016/j.jalz.2017.01.016"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "28242297"}], "href": "https://pubmed.ncbi.nlm.nih.gov/28242297"}]}, {"type": "r", "ref": 4, "children": [{"type": "t", "text": "Jürgen Borlak, Prashant Singh, Giuseppe Gazzana "}, {"type": "b", "children": [{"type": "t", "text": "Proteome mapping of epidermal growth factor induced hepatocellular carcinomas identifies novel cell metabolism targets and mitogen activated protein kinase signalling events."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "BMC Genomics (2015)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1186/s12864-015-1312-z"}], "href": "https://doi.org/10.1186/s12864-015-1312-z"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "25872475"}], "href": "https://pubmed.ncbi.nlm.nih.gov/25872475"}]}]}]}
NCBI Gene ID 10476
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Predicted Functions View ATP5PD's ARCHS4 Predicted Functions.
Co-expressed Genes View ATP5PD's ARCHS4 Predicted Functions.
Expression in Tissues and Cell Lines View ATP5PD's ARCHS4 Predicted Functions.

Functional Associations

ATP5PD has 2,888 functional associations with biological entities spanning 6 categories (chemical, functional term, phrase or reference, disease, phenotype or trait, cell line, cell type or tissue, gene, protein or microRNA, sequence feature) extracted from 41 datasets.

Click the + buttons to view associations for ATP5PD from the datasets below.

If available, associations are ranked by standardized value

Dataset Summary
Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles tissue samples with high or low expression of ATP5PD gene relative to other tissue samples from the Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles dataset.
Carcinogenome Chemical Perturbation Carcinogenicity Signatures small molecule perturbations changing expression of ATP5PD gene from the Carcinogenome Chemical Perturbation Carcinogenicity Signatures dataset.
CCLE Cell Line Proteomics Cell lines associated with ATP5PD protein from the CCLE Cell Line Proteomics dataset.
CellMarker Gene-Cell Type Associations cell types associated with ATP5PD gene from the CellMarker Gene-Cell Type Associations dataset.
ChEA Transcription Factor Targets 2022 transcription factors binding the promoter of ATP5PD gene in low- or high-throughput transcription factor functional studies from the CHEA Transcription Factor Targets 2022 dataset.
CM4AI KOLF21J CRISPRi Gene Perturbation Atlas gene perturbations changing expression of ATP5PD gene from the CM4AI KOLF21J CRISPRi Gene Perturbation Atlas dataset.
CM4AI U2OS Cell Map Protein Localization Assemblies assemblies containing ATP5PD protein from integrated AP-MS and IF data from the CM4AI U2OS Cell Map Protein Localization Assemblies dataset.
COMPARTMENTS Curated Protein Localization Evidence Scores 2025 cellular components containing ATP5PD protein from the COMPARTMENTS Curated Protein Localization Evidence Scores 2025 dataset.
COMPARTMENTS Experimental Protein Localization Evidence Scores 2025 cellular components containing ATP5PD protein in low- or high-throughput protein localization assays from the COMPARTMENTS Experimental Protein Localization Evidence Scores 2025 dataset.
COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025 cellular components co-occuring with ATP5PD protein in abstracts of biomedical publications from the COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025 dataset.
DeepCoverMOA Drug Mechanisms of Action small molecule perturbations with high or low expression of ATP5PD protein relative to other small molecule perturbations from the DeepCoverMOA Drug Mechanisms of Action dataset.
DISEASES Text-mining Gene-Disease Association Evidence Scores 2025 diseases co-occuring with ATP5PD gene in abstracts of biomedical publications from the DISEASES Text-mining Gene-Disease Assocation Evidence Scores 2025 dataset.
DisGeNET Gene-Disease Associations diseases associated with ATP5PD gene in GWAS and other genetic association datasets from the DisGeNET Gene-Disease Associations dataset.
GO Biological Process Annotations 2023 biological processes involving ATP5PD gene from the curated GO Biological Process Annotations 2023 dataset.
GO Biological Process Annotations 2025 biological processes involving ATP5PD gene from the curated GO Biological Process Annotations2025 dataset.
GO Cellular Component Annotations 2023 cellular components containing ATP5PD protein from the curated GO Cellular Component Annotations 2023 dataset.
GO Cellular Component Annotations 2025 cellular components containing ATP5PD protein from the curated GO Cellular Component Annotations 2025 dataset.
GTEx eQTL 2025 SNPs regulating expression of ATP5PD gene from the GTEx eQTL 2025 dataset.
GTEx Tissue Gene Expression Profiles 2023 tissues with high or low expression of ATP5PD gene relative to other tissues from the GTEx Tissue Gene Expression Profiles 2023 dataset.
GWAS Catalog SNP-Phenotype Associations 2025 phenotypes associated with ATP5PD gene in GWAS datasets from the GWAS Catalog SNP-Phenotype Associations 2025 dataset.
JASPAR Predicted Human Transcription Factor Targets 2025 transcription factors regulating expression of ATP5PD gene predicted using known transcription factor binding site motifs from the JASPAR Predicted Human Transcription Factor Targets dataset.
JASPAR Predicted Mouse Transcription Factor Targets 2025 transcription factors regulating expression of ATP5PD gene predicted using known transcription factor binding site motifs from the JASPAR Predicted Mouse Transcription Factor Targets 2025 dataset.
KEGG Pathways 2026 pathways involving ATP5PD protein from the KEGG Pathways 2026 dataset.
Kinase Library Tyrosine Kinome Atlas kinases that phosphorylate ATP5PD protein from the Kinase Library Tyrosine Kinome Atlas dataset.
LINCS L1000 CMAP Chemical Perturbation Consensus Signatures small molecule perturbations changing expression of ATP5PD gene from the LINCS L1000 CMAP Chemical Perturbations Consensus Signatures dataset.
LINCS L1000 CMAP CRISPR Knockout Consensus Signatures gene perturbations changing expression of ATP5PD gene from the LINCS L1000 CMAP CRISPR Knockout Consensus Signatures dataset.
MoTrPAC Rat Endurance Exercise Training tissue samples with high or low expression of ATP5PD gene relative to other tissue samples from the MoTrPAC Rat Endurance Exercise Training dataset.
NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles drug perturbations changing expression of ATP5PD gene from the NIBR DRUG-seq U2OS MoA Box dataset.
PFOCR Pathway Figure Associations 2024 pathways involving ATP5PD protein from the Wikipathways PFOCR 2024 dataset.
Reactome Pathways 2024 pathways involving ATP5PD protein from the Reactome Pathways 2024 dataset.
Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures gene perturbations changing expression of ATP5PD gene from the Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures dataset.
Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures gene perturbations changing expression of ATP5PD gene from the Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures dataset.
Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures gene perturbations changing expression of ATP5PD gene from the Replogle et al., Cell, 2022 RPE1 Essential Perturb-seq Gene Perturbation Signatures dataset.
Rummagene Transcription Factor Associations 2026 transcription factors regulating expression of ATP5PD gene from the Rummagene Transcription Factor Associations 2026 dataset.
RummaGEO Drug Perturbation Signatures drug perturbations changing expression of ATP5PD gene from the RummaGEO Drug Perturbation Signatures dataset.
RummaGEO Gene Perturbation Signatures gene perturbations changing expression of ATP5PD gene from the RummaGEO Gene Perturbation Signatures dataset.
Sci-Plex Drug Perturbation Signatures drug perturbations changing expression of ATP5PD gene from the Sci-Plex Drug Perturbation Signatures dataset.
TISSUES Curated Tissue Protein Expression Evidence Scores 2025 tissues with high expression of ATP5PD protein from the TISSUES Curated Tissue Protein Expression Evidence Scores 2025 dataset.
TISSUES Experimental Tissue Protein Expression Evidence Scores 2025 tissues with high expression of ATP5PD protein in proteomics datasets from the TISSUES Experimental Tissue Protein Expression Evidence Scores 2025 dataset.
TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025 tissues co-occuring with ATP5PD protein in abstracts of biomedical publications from the TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025 dataset.
WikiPathways Pathways 2024 pathways involving ATP5PD protein from the WikiPathways Pathways 2024 dataset.