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Aliases for ATP5PD Gene

Aliases for ATP5PD Gene

  • ATP Synthase Peripheral Stalk Subunit D 2 3
  • ATP Synthase, H+ Transporting, Mitochondrial Fo Complex Subunit D 2 3 5
  • ATP5H 3 4 5
  • ATP Synthase, H+ Transporting, Mitochondrial F0 Complex, Subunit D 2 3
  • ATP Synthase, H+ Transporting, Mitochondrial Fo Complex, Subunit D 2 3
  • ATPase Subunit D 3 4
  • ATP Synthase, H+ Transporting, Mitochondrial F1F0, Subunit D 3
  • ATP Synthase Subunit D, Mitochondrial 3
  • ATP Synthase D Chain, Mitochondrial 3
  • My032 Protein 3
  • ATPQ 3

External Ids for ATP5PD Gene

Previous HGNC Symbols for ATP5PD Gene

  • ATP5H

Summaries for ATP5PD Gene

Entrez Gene Summary for ATP5PD Gene

  • 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]

GeneCards Summary for ATP5PD Gene

ATP5PD (ATP Synthase Peripheral Stalk Subunit D) is a Protein Coding gene. Diseases associated with ATP5PD include Alzheimer Disease. Among its related pathways are Respiratory electron transport, ATP synthesis by chemiosmotic coupling, and heat production by uncoupling proteins. and Metabolism.

UniProtKB/Swiss-Prot for ATP5PD Gene

  • Mitochondrial membrane ATP synthase (F(1)F(0) ATP synthase or Complex V) produces ATP from ADP in the presence of a proton gradient across the membrane which is generated by electron transport complexes of the respiratory chain. F-type ATPases consist of two structural domains, F(1) - containing the extramembraneous catalytic core, and F(0) - containing the membrane proton channel, linked together by a central stalk and a peripheral stalk. During catalysis, ATP synthesis in the catalytic domain of F(1) is coupled via a rotary mechanism of the central stalk subunits to proton translocation. Part of the complex F(0) domain and the peripheric stalk, which acts as a stator to hold the catalytic alpha(3)beta(3) subcomplex and subunit a/ATP6 static relative to the rotary elements.

Gene Wiki entry for ATP5PD Gene

Additional gene information for ATP5PD Gene

No data available for CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for ATP5PD Gene

Genomics for ATP5PD Gene

GeneHancer (GH) Regulatory Elements for ATP5PD Gene

Promoters and enhancers for ATP5PD Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH17I075046 Promoter/Enhancer 2.3 EPDnew Ensembl ENCODE dbSUPER 567.1 -0.5 -465 3.6 HDGF PKNOX1 CLOCK SMAD1 ARID4B SIN3A DMAP1 ZNF2 YY1 SLC30A9 ATP5PD KCTD2 GC17P075050 PIR61802 NUP85 ENSG00000266980 SLC25A19
GH17I075045 Enhancer 0.2 ENCODE 566.7 +1.7 1664 0.2 ATP5PD GC17M075043 GC17M075044 PIR44708 KCTD2
GH17I075180 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE 17.1 -135.7 -135665 3.3 HDGF PKNOX1 CLOCK SMAD1 ARNT ARID4B SIN3A DMAP1 YY1 ZNF766 SUMO2 NUP85 NT5C GGA3 ATP5PD ENSG00000266980 UNK LOC101928343 MIF4GD KCTD2
GH17I075031 Promoter/Enhancer 2.1 FANTOM5 Ensembl ENCODE dbSUPER 15.5 +12.4 12364 5.8 CLOCK MLX ZFP64 FEZF1 DMAP1 IRF4 YY1 SLC30A9 ZNF213 ZNF143 GC17P075034 GC17P075036 GC17M075035 TRR-CCT1-1 TRR-CCT2-1 TRR-TCG3-1 NUP85 UNK NT5C GGA3
GH17I075010 Promoter/Enhancer 2.6 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 11.4 +34.8 34783 3.7 MLX ZFP64 FEZF1 DMAP1 IRF4 YY1 SLC30A9 ZNF213 E2F8 ZNF143 MRPL58 UNK GGA3 HID1 NUP85 CDK3 NT5C ENSG00000266980 KCTD2 CDR2L
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around ATP5PD on UCSC Golden Path with GeneCards custom track

Genomic Locations for ATP5PD Gene

Genomic Locations for ATP5PD Gene
chr17:75,038,860-75,046,985
(GRCh38/hg38)
Size:
8,126 bases
Orientation:
Minus strand
chr17:73,034,955-73,043,080
(GRCh37/hg19)

Genomic View for ATP5PD Gene

Genes around ATP5PD on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
ATP5PD Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for ATP5PD Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for ATP5PD Gene

Proteins for ATP5PD Gene

  • Protein details for ATP5PD Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    O75947-ATP5H_HUMAN
    Recommended name:
    ATP synthase subunit d, mitochondrial
    Protein Accession:
    O75947
    Secondary Accessions:
    • B2R5L6
    • Q9H3J4

    Protein attributes for ATP5PD Gene

    Size:
    161 amino acids
    Molecular mass:
    18491 Da
    Quaternary structure:
    • F-type ATPases have 2 components, CF(1) - the catalytic core - and CF(0) - the membrane proton channel. CF(0) seems to have nine subunits: a, b, c, d, e, f, g, F6 and 8 (or A6L). Component of an ATP synthase complex composed of ATP5F1, ATP5G1, ATP5E, ATP5H, ATP5I, ATP5J, ATP5J2, MT-ATP6, MT-ATP8, ATP5A1, ATP5B, ATP5D, ATP5C1, ATP5O, ATP5L, USMG5 and MP68 (By similarity).

    Alternative splice isoforms for ATP5PD Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for ATP5PD Gene

Post-translational modifications for ATP5PD Gene

No Post-translational modifications

Other Protein References for ATP5PD Gene

No data available for DME Specific Peptides for ATP5PD Gene

Domains & Families for ATP5PD Gene

Gene Families for ATP5PD Gene

Protein Domains for ATP5PD Gene

Suggested Antigen Peptide Sequences for ATP5PD Gene

Graphical View of Domain Structure for InterPro Entry

O75947

UniProtKB/Swiss-Prot:

ATP5H_HUMAN :
  • Belongs to the ATPase d subunit family.
Family:
  • Belongs to the ATPase d subunit family.
genes like me logo Genes that share domains with ATP5PD: view

Function for ATP5PD Gene

Molecular function for ATP5PD Gene

UniProtKB/Swiss-Prot Function:
Mitochondrial membrane ATP synthase (F(1)F(0) ATP synthase or Complex V) produces ATP from ADP in the presence of a proton gradient across the membrane which is generated by electron transport complexes of the respiratory chain. F-type ATPases consist of two structural domains, F(1) - containing the extramembraneous catalytic core, and F(0) - containing the membrane proton channel, linked together by a central stalk and a peripheral stalk. During catalysis, ATP synthesis in the catalytic domain of F(1) is coupled via a rotary mechanism of the central stalk subunits to proton translocation. Part of the complex F(0) domain and the peripheric stalk, which acts as a stator to hold the catalytic alpha(3)beta(3) subcomplex and subunit a/ATP6 static relative to the rotary elements.

Phenotypes From GWAS Catalog for ATP5PD Gene

Gene Ontology (GO) - Molecular Function for ATP5PD Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0015078 hydrogen ion transmembrane transporter activity IEA --
GO:0016887 contributes_to ATPase activity IDA 12110673
GO:0022857 transmembrane transporter activity IC 12110673
GO:0046933 contributes_to proton-transporting ATP synthase activity, rotational mechanism IBA --
genes like me logo Genes that share ontologies with ATP5PD: view
genes like me logo Genes that share phenotypes with ATP5PD: view

Animal Model Products

CRISPR Products

miRNA for ATP5PD Gene

miRTarBase miRNAs that target ATP5PD

Inhibitory RNA Products

Clone Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for ATP5PD Gene

Localization for ATP5PD Gene

Subcellular locations from UniProtKB/Swiss-Prot for ATP5PD Gene

Mitochondrion. Mitochondrion inner membrane.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for ATP5PD gene
Compartment Confidence
extracellular 5
mitochondrion 5
nucleus 5
cytosol 5

Subcellular locations from the

Human Protein Atlas (HPA)

Gene Ontology (GO) - Cellular Components for ATP5PD Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000274 mitochondrial proton-transporting ATP synthase, stator stalk IBA --
GO:0000276 mitochondrial proton-transporting ATP synthase complex, coupling factor F(o) IEA --
GO:0005654 nucleoplasm IDA --
GO:0005739 mitochondrion IDA,IEA --
GO:0005743 mitochondrial inner membrane TAS --
genes like me logo Genes that share ontologies with ATP5PD: view

Pathways & Interactions for ATP5PD Gene

genes like me logo Genes that share pathways with ATP5PD: view

Gene Ontology (GO) - Biological Process for ATP5PD Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006754 ATP biosynthetic process TAS --
GO:0006810 transport IEA --
GO:0006811 ion transport IEA --
GO:0015986 ATP synthesis coupled proton transport IBA,IEA --
GO:0015992 proton transport IEA --
genes like me logo Genes that share ontologies with ATP5PD: view

No data available for SIGNOR curated interactions for ATP5PD Gene

Drugs & Compounds for ATP5PD Gene

No Compound Related Data Available

Transcripts for ATP5PD Gene

CRISPR Products

Inhibitory RNA Products

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for ATP5PD Gene

No ASD Table

Relevant External Links for ATP5PD Gene

GeneLoc Exon Structure for
ATP5PD
ECgene alternative splicing isoforms for
ATP5PD

Expression for ATP5PD Gene

NURSA nuclear receptor signaling pathways regulating expression of ATP5PD Gene:

ATP5PD

Evidence on tissue expression from TISSUES for ATP5PD Gene

  • Liver(4.7)
  • Nervous system(4.7)
  • Blood(4.3)
  • Pancreas(4.3)
  • Heart(3.4)
  • Kidney(3.1)
  • Muscle(3.1)
  • Intestine(2.8)
  • Spleen(2.8)
  • Lung(2.7)
  • Stomach(2.3)
  • Adrenal gland(2.1)
  • Thyroid gland(2.1)
  • Skin(2)
No Expression Related Data Available

Primer Products

No data available for mRNA expression in normal human tissues , mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , Protein differential expression in normal tissues , Protein expression , Protein tissue co-expression partners , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for ATP5PD Gene

Orthologs for ATP5PD Gene

This gene was present in the common ancestor of animals and fungi.

Orthologs for ATP5PD Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia ATP5H 33 34
  • 100 (n)
dog
(Canis familiaris)
Mammalia -- 34
  • 91 (a)
OneToMany
-- 34
  • 91 (a)
OneToMany
-- 34
  • 91 (a)
OneToMany
-- 34
  • 91 (a)
OneToMany
LOC102154055 33
  • 90.48 (n)
-- 34
  • 90 (a)
OneToMany
-- 34
  • 90 (a)
OneToMany
-- 34
  • 89 (a)
OneToMany
-- 34
  • 89 (a)
OneToMany
-- 34
  • 89 (a)
OneToMany
-- 34
  • 89 (a)
OneToMany
-- 34
  • 89 (a)
OneToMany
-- 34
  • 88 (a)
OneToMany
-- 34
  • 88 (a)
OneToMany
-- 34
  • 88 (a)
OneToMany
-- 34
  • 88 (a)
OneToMany
-- 34
  • 87 (a)
OneToMany
-- 34
  • 87 (a)
OneToMany
-- 34
  • 87 (a)
OneToMany
-- 34
  • 87 (a)
OneToMany
-- 34
  • 86 (a)
OneToMany
-- 34
  • 86 (a)
OneToMany
-- 34
  • 85 (a)
OneToMany
-- 34
  • 85 (a)
OneToMany
-- 34
  • 82 (a)
OneToMany
-- 34
  • 82 (a)
OneToMany
-- 34
  • 82 (a)
OneToMany
-- 34
  • 80 (a)
OneToMany
-- 34
  • 77 (a)
OneToMany
cow
(Bos Taurus)
Mammalia ATP5H 33 34
  • 89.03 (n)
-- 34
  • 80 (a)
OneToMany
mouse
(Mus musculus)
Mammalia Gm10250 34
  • 81 (a)
OneToMany
Atp5h 16 33 34
  • 80.54 (n)
Gm4953 34
  • 75 (a)
OneToMany
rat
(Rattus norvegicus)
Mammalia Atp5h 33
  • 78.88 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia -- 34
  • 78 (a)
OneToMany
-- 34
  • 67 (a)
OneToMany
oppossum
(Monodelphis domestica)
Mammalia ATP5H 34
  • 75 (a)
OneToOne
chicken
(Gallus gallus)
Aves ATP5H 33 34
  • 68.53 (n)
lizard
(Anolis carolinensis)
Reptilia ATP5H 34
  • 58 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia atp5h 33
  • 61.9 (n)
Str.1257 33
African clawed frog
(Xenopus laevis)
Amphibia Xl.23901 33
zebrafish
(Danio rerio)
Actinopterygii atp5h 33 34
  • 65.22 (n)
zgc73071 33
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.8409 33
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP011131 33
  • 55.35 (n)
fruit fly
(Drosophila melanogaster)
Insecta ATPsyn-d 33 34
  • 53.21 (n)
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes ATP7 36
sea squirt
(Ciona savignyi)
Ascidiacea CSA.7968 34
  • 29 (a)
OneToOne
Species where no ortholog for ATP5PD was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for ATP5PD Gene

ENSEMBL:
Gene Tree for ATP5PD (if available)
TreeFam:
Gene Tree for ATP5PD (if available)

Paralogs for ATP5PD Gene

Pseudogenes.org Pseudogenes for ATP5PD Gene

genes like me logo Genes that share paralogs with ATP5PD: view

No data available for Paralogs for ATP5PD Gene

Variants for ATP5PD Gene

Sequence variations from dbSNP and Humsavar for ATP5PD Gene

SNP ID Clin Chr 17 pos Variation AA Info Type
rs1000204754 -- 75,043,094(-) C/T intron_variant
rs1000486566 -- 75,042,836(-) G/C intron_variant
rs1000537240 -- 75,044,945(-) G/T intron_variant
rs1001093033 -- 75,040,817(-) C/T intron_variant
rs1001435267 -- 75,038,567(-) G/A downstream_transcript_variant

Structural Variations from Database of Genomic Variants (DGV) for ATP5PD Gene

Variant ID Type Subtype PubMed ID
esv1720628 CNV deletion 17803354
esv2566082 CNV deletion 19546169
esv2716235 CNV deletion 23290073
esv3554781 CNV deletion 23714750
esv3893044 CNV loss 25118596
nsv112456 CNV deletion 16902084

Variation tolerance for ATP5PD Gene

Residual Variation Intolerance Score: 57.5% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.22; 4.85% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for ATP5PD Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
ATP5PD

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for ATP5PD Gene

Disorders for ATP5PD Gene

MalaCards: The human disease database

(1) MalaCards diseases for ATP5PD Gene - From: DISEASES and GeneCards

Disorder Aliases PubMed IDs
alzheimer disease
  • ad
- elite association - COSMIC cancer census association via MalaCards

Additional Disease Information for ATP5PD

genes like me logo Genes that share disorders with ATP5PD: view

No data available for UniProtKB/Swiss-Prot and Genatlas for ATP5PD Gene

Publications for ATP5PD Gene

  1. Cloning and functional analysis of cDNAs with open reading frames for 300 previously undefined genes expressed in CD34+ hematopoietic stem/progenitor cells. (PMID: 11042152) Zhang QH … Chen Z (Genome research 2000) 2 3 4 58
  2. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4 58
  3. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard DS … MGC Project Team (Genome research 2004) 3 4 58
  4. An Interaction Landscape of Ubiquitin Signaling. (PMID: 28190767) Zhang X … Vermeulen M (Molecular cell 2017) 3 58
  5. Architecture of the human interactome defines protein communities and disease networks. (PMID: 28514442) Huttlin EL … Harper JW (Nature 2017) 3 58

Products for ATP5PD Gene

Sources for ATP5PD Gene

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