ID ATPD_HUMAN Reviewed; 168 AA. AC P30049; D6W5Y3; Q6FG90; DT 01-APR-1993, integrated into UniProtKB/Swiss-Prot. DT 01-OCT-1994, sequence version 2. DT 27-MAR-2024, entry version 213. DE RecName: Full=ATP synthase subunit delta, mitochondrial {ECO:0000305}; DE AltName: Full=ATP synthase F1 subunit delta {ECO:0000312|HGNC:HGNC:837}; DE AltName: Full=F-ATPase delta subunit; DE Flags: Precursor; GN Name=ATP5F1D {ECO:0000312|HGNC:HGNC:837}; GN Synonyms=ATP5D {ECO:0000312|HGNC:HGNC:837}; OS Homo sapiens (Human). OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; OC Homo. OX NCBI_TaxID=9606; RN [1] RP NUCLEOTIDE SEQUENCE [MRNA], AND FUNCTION. RX PubMed=1531933; DOI=10.1016/0167-4781(92)90477-h; RA Jordan E.M., Breen G.A.M.; RT "Molecular cloning of an import precursor of the delta-subunit of the human RT mitochondrial ATP synthase complex."; RL Biochim. Biophys. Acta 1130:123-126(1992). RN [2] RP NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA]. RA Halleck A., Ebert L., Mkoundinya M., Schick M., Eisenstein S., Neubert P., RA Kstrang K., Schatten R., Shen B., Henze S., Mar W., Korn B., Zuo D., Hu Y., RA LaBaer J.; RT "Cloning of human full open reading frames in Gateway(TM) system entry RT vector (pDONR201)."; RL Submitted (JUN-2004) to the EMBL/GenBank/DDBJ databases. RN [3] RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. RX PubMed=15057824; DOI=10.1038/nature02399; RA Grimwood J., Gordon L.A., Olsen A.S., Terry A., Schmutz J., Lamerdin J.E., RA Hellsten U., Goodstein D., Couronne O., Tran-Gyamfi M., Aerts A., RA Altherr M., Ashworth L., Bajorek E., Black S., Branscomb E., Caenepeel S., RA Carrano A.V., Caoile C., Chan Y.M., Christensen M., Cleland C.A., RA Copeland A., Dalin E., Dehal P., Denys M., Detter J.C., Escobar J., RA Flowers D., Fotopulos D., Garcia C., Georgescu A.M., Glavina T., Gomez M., RA Gonzales E., Groza M., Hammon N., Hawkins T., Haydu L., Ho I., Huang W., RA Israni S., Jett J., Kadner K., Kimball H., Kobayashi A., Larionov V., RA Leem S.-H., Lopez F., Lou Y., Lowry S., Malfatti S., Martinez D., RA McCready P.M., Medina C., Morgan J., Nelson K., Nolan M., Ovcharenko I., RA Pitluck S., Pollard M., Popkie A.P., Predki P., Quan G., Ramirez L., RA Rash S., Retterer J., Rodriguez A., Rogers S., Salamov A., Salazar A., RA She X., Smith D., Slezak T., Solovyev V., Thayer N., Tice H., Tsai M., RA Ustaszewska A., Vo N., Wagner M., Wheeler J., Wu K., Xie G., Yang J., RA Dubchak I., Furey T.S., DeJong P., Dickson M., Gordon D., Eichler E.E., RA Pennacchio L.A., Richardson P., Stubbs L., Rokhsar D.S., Myers R.M., RA Rubin E.M., Lucas S.M.; RT "The DNA sequence and biology of human chromosome 19."; RL Nature 428:529-535(2004). RN [4] RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. RA Mural R.J., Istrail S., Sutton G.G., Florea L., Halpern A.L., Mobarry C.M., RA Lippert R., Walenz B., Shatkay H., Dew I., Miller J.R., Flanigan M.J., RA Edwards N.J., Bolanos R., Fasulo D., Halldorsson B.V., Hannenhalli S., RA Turner R., Yooseph S., Lu F., Nusskern D.R., Shue B.C., Zheng X.H., RA Zhong F., Delcher A.L., Huson D.H., Kravitz S.A., Mouchard L., Reinert K., RA Remington K.A., Clark A.G., Waterman M.S., Eichler E.E., Adams M.D., RA Hunkapiller M.W., Myers E.W., Venter J.C.; RL Submitted (SEP-2005) to the EMBL/GenBank/DDBJ databases. RN [5] RP NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA]. RC TISSUE=Brain, and Lung; RX PubMed=15489334; DOI=10.1101/gr.2596504; RG The MGC Project Team; RT "The status, quality, and expansion of the NIH full-length cDNA project: RT the Mammalian Gene Collection (MGC)."; RL Genome Res. 14:2121-2127(2004). RN [6] RP PROTEIN SEQUENCE OF 23-38. RC TISSUE=Liver; RX PubMed=1286669; DOI=10.1002/elps.11501301201; RA Hochstrasser D.F., Frutiger S., Paquet N., Bairoch A., Ravier F., RA Pasquali C., Sanchez J.-C., Tissot J.-D., Bjellqvist B., Vargas R., RA Appel R.D., Hughes G.J.; RT "Human liver protein map: a reference database established by RT microsequencing and gel comparison."; RL Electrophoresis 13:992-1001(1992). RN [7] RP IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS]. RX PubMed=21269460; DOI=10.1186/1752-0509-5-17; RA Burkard T.R., Planyavsky M., Kaupe I., Breitwieser F.P., Buerckstuemmer T., RA Bennett K.L., Superti-Furga G., Colinge J.; RT "Initial characterization of the human central proteome."; RL BMC Syst. Biol. 5:17-17(2011). RN [8] RP IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS]. RC TISSUE=Liver; RX PubMed=24275569; DOI=10.1016/j.jprot.2013.11.014; RA Bian Y., Song C., Cheng K., Dong M., Wang F., Huang J., Sun D., Wang L., RA Ye M., Zou H.; RT "An enzyme assisted RP-RPLC approach for in-depth analysis of human liver RT phosphoproteome."; RL J. Proteomics 96:253-262(2014). RN [9] RP IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS]. RX PubMed=25944712; DOI=10.1002/pmic.201400617; RA Vaca Jacome A.S., Rabilloud T., Schaeffer-Reiss C., Rompais M., Ayoub D., RA Lane L., Bairoch A., Van Dorsselaer A., Carapito C.; RT "N-terminome analysis of the human mitochondrial proteome."; RL Proteomics 15:2519-2524(2015). RN [10] RP FUNCTION, INVOLVEMENT IN MC5DN5, VARIANTS MC5DN5 LEU-82 AND GLY-106, AND RP CHARACTERIZATION OF VARIANTS MC5DN5 LEU-82 AND GLY-106. RX PubMed=29478781; DOI=10.1016/j.ajhg.2018.01.020; RG Undiagnosed Diseases Network; RA Olahova M., Yoon W.H., Thompson K., Jangam S., Fernandez L., Davidson J.M., RA Kyle J.E., Grove M.E., Fisk D.G., Kohler J.N., Holmes M., Dries A.M., RA Huang Y., Zhao C., Contrepois K., Zappala Z., Fresard L., Waggott D., RA Zink E.M., Kim Y.M., Heyman H.M., Stratton K.G., Webb-Robertson B.M., RA Snyder M., Merker J.D., Montgomery S.B., Fisher P.G., Feichtinger R.G., RA Mayr J.A., Hall J., Barbosa I.A., Simpson M.A., Deshpande C., Waters K.M., RA Koeller D.M., Metz T.O., Morris A.A., Schelley S., Cowan T., RA Friederich M.W., McFarland R., Van Hove J.L.K., Enns G.M., Yamamoto S., RA Ashley E.A., Wangler M.F., Taylor R.W., Bellen H.J., Bernstein J.A., RA Wheeler M.T.; RT "Biallelic Mutations in ATP5F1D, which Encodes a Subunit of ATP Synthase, RT Cause a Metabolic Disorder."; RL Am. J. Hum. Genet. 102:494-504(2018). CC -!- FUNCTION: Mitochondrial membrane ATP synthase (F(1)F(0) ATP synthase or CC Complex V) produces ATP from ADP in the presence of a proton gradient CC across the membrane which is generated by electron transport complexes CC of the respiratory chain (PubMed:29478781). F-type ATPases consist of CC two structural domains, F(1) - containing the extramembraneous CC catalytic core, and F(0) - containing the membrane proton channel, CC linked together by a central stalk and a peripheral stalk. During CC catalysis, ATP turnover in the catalytic domain of F(1) is coupled via CC a rotary mechanism of the central stalk subunits to proton CC translocation. Part of the complex F(1) domain and of the central stalk CC which is part of the complex rotary element. Rotation of the central CC stalk against the surrounding alpha(3)beta(3) subunits leads to CC hydrolysis of ATP in three separate catalytic sites on the beta CC subunits (PubMed:1531933). {ECO:0000269|PubMed:29478781, CC ECO:0000303|PubMed:1531933}. CC -!- SUBUNIT: F-type ATPases have 2 components, CF(1) - the catalytic core CC - and CF(0) - the membrane proton channel. CF(1) has five subunits: CC alpha(3), beta(3), gamma(1), delta(1), epsilon(1). CF(0) seems to have CC nine subunits: a, b, c, d, e, f, g, F6 and 8 (or A6L). Component of an CC ATP synthase complex composed of ATP5PB, ATP5MC1, ATP5F1E, ATP5PD, CC ATP5ME, ATP5PF, ATP5MF, MT-ATP6, MT-ATP8, ATP5F1A, ATP5F1B, ATP5F1D, CC ATP5F1C, ATP5PO, ATP5MG, ATP5MK and ATP5MJ (By similarity). CC {ECO:0000250}. CC -!- INTERACTION: CC P30049; P56381: ATP5F1E; NbExp=4; IntAct=EBI-1049505, EBI-3904845; CC P30049; P54253: ATXN1; NbExp=3; IntAct=EBI-1049505, EBI-930964; CC P30049; P60410: KRTAP10-8; NbExp=3; IntAct=EBI-1049505, EBI-10171774; CC P30049; Q99750: MDFI; NbExp=3; IntAct=EBI-1049505, EBI-724076; CC P30049; P0DPK4: NOTCH2NLC; NbExp=3; IntAct=EBI-1049505, EBI-22310682; CC P30049; Q05519-2: SRSF11; NbExp=3; IntAct=EBI-1049505, EBI-11975029; CC P30049; Q63HR2: TNS2; NbExp=3; IntAct=EBI-1049505, EBI-949753; CC -!- SUBCELLULAR LOCATION: Mitochondrion. Mitochondrion inner membrane. CC -!- DISEASE: Mitochondrial complex V deficiency, nuclear type 5 (MC5DN5) CC [MIM:618120]: A mitochondrial disorder characterized by childhood onset CC of episodic metabolic decompensation featuring lactic acidosis and CC hyperammonemia accompanied by ketoacidosis or hypoglycemia. Chronic CC manifestations include developmental delay, easy fatiguability, and 3- CC methylglutaconic aciduria. The transmission pattern of MC5DN5 is CC consistent with autosomal recessive inheritance. CC {ECO:0000269|PubMed:29478781}. Note=Disease susceptibility is CC associated with variants affecting the gene represented in this entry. CC -!- SIMILARITY: Belongs to the ATPase epsilon chain family. {ECO:0000305}. CC --------------------------------------------------------------------------- CC Copyrighted by the UniProt Consortium, see https://www.uniprot.org/terms CC Distributed under the Creative Commons Attribution (CC BY 4.0) License CC --------------------------------------------------------------------------- DR EMBL; S87916; AAA08055.1; -; mRNA. DR EMBL; S87918; ABB76284.1; -; mRNA. DR EMBL; X63422; CAA45016.1; -; mRNA. DR EMBL; X63423; CAA45017.1; -; mRNA. DR EMBL; CR542218; CAG47014.1; -; mRNA. DR EMBL; AC004221; AAC04304.1; -; Genomic_DNA. DR EMBL; CH471139; EAW69532.1; -; Genomic_DNA. DR EMBL; CH471139; EAW69533.1; -; Genomic_DNA. DR EMBL; CH471139; EAW69534.1; -; Genomic_DNA. DR EMBL; BC002389; AAH02389.1; -; mRNA. DR EMBL; BC004426; AAH04426.1; -; mRNA. DR EMBL; BC018079; AAH18079.1; -; mRNA. DR CCDS; CCDS12058.1; -. DR PIR; S22348; S22348. DR RefSeq; NP_001001975.1; NM_001001975.1. DR RefSeq; NP_001678.1; NM_001687.4. DR PDB; 8H9F; EM; 2.69 A; H=23-168. DR PDB; 8H9J; EM; 3.26 A; H=23-168. DR PDB; 8H9M; EM; 3.00 A; H=23-168. DR PDB; 8H9Q; EM; 3.47 A; H=23-168. DR PDB; 8H9S; EM; 2.53 A; H=23-168. DR PDB; 8H9T; EM; 2.77 A; H=23-168. DR PDB; 8H9U; EM; 2.61 A; H=23-168. DR PDB; 8H9V; EM; 3.02 A; H=23-168. DR PDBsum; 8H9F; -. DR PDBsum; 8H9J; -. DR PDBsum; 8H9M; -. DR PDBsum; 8H9Q; -. DR PDBsum; 8H9S; -. DR PDBsum; 8H9T; -. DR PDBsum; 8H9U; -. DR PDBsum; 8H9V; -. DR AlphaFoldDB; P30049; -. DR EMDB; EMD-34565; -. DR EMDB; EMD-34569; -. DR EMDB; EMD-34573; -. DR EMDB; EMD-34577; -. DR EMDB; EMD-34580; -. DR EMDB; EMD-34581; -. DR EMDB; EMD-34582; -. DR EMDB; EMD-34583; -. DR SMR; P30049; -. DR BioGRID; 106998; 149. DR ComplexPortal; CPX-6151; Mitochondrial proton-transporting ATP synthase complex. DR CORUM; P30049; -. DR IntAct; P30049; 66. DR MINT; P30049; -. DR STRING; 9606.ENSP00000215375; -. DR DrugBank; DB01189; Desflurane. DR DrugBank; DB00753; Isoflurane. DR DrugBank; DB13749; Magnesium gluconate. DR TCDB; 3.A.2.1.15; the h+- or na+-translocating f-type, v-type and a-type atpase (f-atpase) superfamily. DR GlyGen; P30049; 1 site, 1 O-linked glycan (1 site). DR iPTMnet; P30049; -. DR PhosphoSitePlus; P30049; -. DR BioMuta; ATP5D; -. DR DMDM; 584812; -. DR OGP; P30049; -. DR EPD; P30049; -. DR jPOST; P30049; -. DR MassIVE; P30049; -. DR MaxQB; P30049; -. DR PaxDb; 9606-ENSP00000215375; -. DR PeptideAtlas; P30049; -. DR ProteomicsDB; 54629; -. DR Pumba; P30049; -. DR TopDownProteomics; P30049; -. DR Antibodypedia; 1258; 348 antibodies from 29 providers. DR DNASU; 513; -. DR Ensembl; ENST00000215375.7; ENSP00000215375.1; ENSG00000099624.8. DR Ensembl; ENST00000395633.5; ENSP00000378995.1; ENSG00000099624.8. DR Ensembl; ENST00000591660.5; ENSP00000464863.1; ENSG00000099624.8. DR GeneID; 513; -. DR KEGG; hsa:513; -. DR MANE-Select; ENST00000215375.7; ENSP00000215375.1; NM_001687.5; NP_001678.1. DR UCSC; uc002lrn.4; human. DR AGR; HGNC:837; -. DR CTD; 513; -. DR DisGeNET; 513; -. DR GeneCards; ATP5F1D; -. DR HGNC; HGNC:837; ATP5F1D. DR HPA; ENSG00000099624; Tissue enhanced (skeletal). DR MalaCards; ATP5F1D; -. DR MIM; 603150; gene. DR MIM; 618120; phenotype. DR neXtProt; NX_P30049; -. DR OpenTargets; ENSG00000099624; -. DR Orphanet; 254913; Isolated ATP synthase deficiency. DR PharmGKB; PA25127; -. DR VEuPathDB; HostDB:ENSG00000099624; -. DR eggNOG; KOG1758; Eukaryota. DR GeneTree; ENSGT00390000017576; -. DR HOGENOM; CLU_084338_0_1_1; -. DR InParanoid; P30049; -. DR OMA; PHQTIYR; -. DR OrthoDB; 5394300at2759; -. DR PhylomeDB; P30049; -. DR TreeFam; TF313029; -. DR BioCyc; MetaCyc:HS01900-MONOMER; -. DR PathwayCommons; P30049; -. DR Reactome; R-HSA-163210; Formation of ATP by chemiosmotic coupling. DR Reactome; R-HSA-8949613; Cristae formation. DR SignaLink; P30049; -. DR SIGNOR; P30049; -. DR BioGRID-ORCS; 513; 662 hits in 1152 CRISPR screens. DR ChiTaRS; ATP5D; human. DR GeneWiki; ATP5D; -. DR GenomeRNAi; 513; -. DR Pharos; P30049; Tbio. DR PRO; PR:P30049; -. DR Proteomes; UP000005640; Chromosome 19. DR RNAct; P30049; Protein. DR Bgee; ENSG00000099624; Expressed in apex of heart and 203 other cell types or tissues. DR ExpressionAtlas; P30049; baseline and differential. DR GO; GO:0005743; C:mitochondrial inner membrane; ISS:UniProtKB. DR GO; GO:0005759; C:mitochondrial matrix; TAS:Reactome. DR GO; GO:0005753; C:mitochondrial proton-transporting ATP synthase complex; IDA:UniProtKB. DR GO; GO:0000275; C:mitochondrial proton-transporting ATP synthase complex, catalytic sector F(1); IBA:GO_Central. DR GO; GO:0005739; C:mitochondrion; NAS:UniProtKB. DR GO; GO:0046933; F:proton-transporting ATP synthase activity, rotational mechanism; IEA:InterPro. DR GO; GO:0009060; P:aerobic respiration; IMP:UniProtKB. DR GO; GO:0033615; P:mitochondrial proton-transporting ATP synthase complex assembly; IMP:UniProtKB. DR GO; GO:0015986; P:proton motive force-driven ATP synthesis; IBA:GO_Central. DR GO; GO:0042776; P:proton motive force-driven mitochondrial ATP synthesis; IDA:UniProtKB. DR GO; GO:0046688; P:response to copper ion; NAS:UniProtKB. DR CDD; cd12152; F1-ATPase_delta; 1. DR Gene3D; 1.20.5.440; ATP synthase delta/epsilon subunit, C-terminal domain; 1. DR Gene3D; 2.60.15.10; F0F1 ATP synthase delta/epsilon subunit, N-terminal; 1. DR HAMAP; MF_00530; ATP_synth_epsil_bac; 1. DR InterPro; IPR036794; ATP_F1_dsu/esu_C_sf. DR InterPro; IPR001469; ATP_synth_F1_dsu/esu. DR InterPro; IPR020546; ATP_synth_F1_dsu/esu_N. DR InterPro; IPR048937; ATPD_C_metazoa. DR InterPro; IPR036771; ATPsynth_dsu/esu_N. DR NCBIfam; TIGR01216; ATP_synt_epsi; 1. DR PANTHER; PTHR13822; ATP SYNTHASE DELTA/EPSILON CHAIN; 1. DR PANTHER; PTHR13822:SF7; ATP SYNTHASE SUBUNIT DELTA, MITOCHONDRIAL; 1. DR Pfam; PF02823; ATP-synt_DE_N; 1. DR Pfam; PF21335; ATPD_C_metazoa; 1. DR SUPFAM; SSF46604; Epsilon subunit of F1F0-ATP synthase C-terminal domain; 1. DR SUPFAM; SSF51344; Epsilon subunit of F1F0-ATP synthase N-terminal domain; 1. DR SWISS-2DPAGE; P30049; -. DR UCD-2DPAGE; P30049; -. DR Genevisible; P30049; HS. PE 1: Evidence at protein level; KW 3D-structure; Acetylation; ATP synthesis; CF(1); Direct protein sequencing; KW Disease variant; Hydrogen ion transport; Ion transport; Membrane; KW Mitochondrion; Mitochondrion inner membrane; Primary mitochondrial disease; KW Reference proteome; Transit peptide; Transport. FT TRANSIT 1..22 FT /note="Mitochondrion" FT /evidence="ECO:0000269|PubMed:1286669" FT CHAIN 23..168 FT /note="ATP synthase subunit delta, mitochondrial" FT /id="PRO_0000002661" FT MOD_RES 136 FT /note="N6-acetyllysine; alternate" FT /evidence="ECO:0000250|UniProtKB:Q9D3D9" FT MOD_RES 136 FT /note="N6-succinyllysine; alternate" FT /evidence="ECO:0000250|UniProtKB:Q9D3D9" FT MOD_RES 165 FT /note="N6-acetyllysine; alternate" FT /evidence="ECO:0000250|UniProtKB:Q9D3D9" FT MOD_RES 165 FT /note="N6-succinyllysine; alternate" FT /evidence="ECO:0000250|UniProtKB:Q9D3D9" FT VARIANT 82 FT /note="P -> L (in MC5DN5; no effect on protein abundance; FT decreased mitochondrial proton-transporting ATP synthase FT complex assembly; decreased aerobic respiration in patient FT cells homozygous for the mutation; partial loss of function FT confirmed by complementation assays; dbSNP:rs867410737)" FT /evidence="ECO:0000269|PubMed:29478781" FT /id="VAR_081452" FT VARIANT 106 FT /note="V -> G (in MC5DN5; no effect on protein abundance; FT decreased mitochondrial proton-transporting ATP synthase FT complex assembly; decreased aerobic respiration in patient FT cells homozygous for the mutation; partial loss of function FT confirmed by complementation assays; dbSNP:rs1555745989)" FT /evidence="ECO:0000269|PubMed:29478781" FT /id="VAR_081453" FT STRAND 39..43 FT /evidence="ECO:0007829|PDB:8H9M" FT STRAND 47..49 FT /evidence="ECO:0007829|PDB:8H9V" FT STRAND 51..62 FT /evidence="ECO:0007829|PDB:8H9M" FT STRAND 65..69 FT /evidence="ECO:0007829|PDB:8H9M" FT STRAND 76..80 FT /evidence="ECO:0007829|PDB:8H9M" FT STRAND 82..89 FT /evidence="ECO:0007829|PDB:8H9M" FT STRAND 94..99 FT /evidence="ECO:0007829|PDB:8H9M" FT STRAND 101..106 FT /evidence="ECO:0007829|PDB:8H9M" FT STRAND 110..121 FT /evidence="ECO:0007829|PDB:8H9M" FT HELIX 122..124 FT /evidence="ECO:0007829|PDB:8H9M" FT HELIX 127..143 FT /evidence="ECO:0007829|PDB:8H9M" FT HELIX 147..167 FT /evidence="ECO:0007829|PDB:8H9M" SQ SEQUENCE 168 AA; 17490 MW; B7F0D1D01ADFDFE7 CRC64; MLPAALLRRP GLGRLVRHAR AYAEAAAAPA AASGPNQMSF TFASPTQVFF NGANVRQVDV PTLTGAFGIL AAHVPTLQVL RPGLVVVHAE DGTTSKYFVS SGSIAVNADS SVQLLAEEAV TLDMLDLGAA KANLEKAQAE LVGTADEATR AEIQIRIEAN EALVKALE //