PLD4 (phospholipase D family member 4)

Gene

• Entrez ID: 122618
• Gene name: Phospholipase D family member 4
• Gene symbol: PLD4
• Synonyms: C14orf175
• Chromosome: 14
• Chromosome location: 14q32.33

miRNA

miRTarBase ID	miRNA	Experiments	Reference
MIRT016764	hsa-miR-335-5p	Microarray	18185580
MIRT1240306	hsa-miR-1343	CLIP-seq
MIRT1240307	hsa-miR-3179	CLIP-seq
MIRT1240308	hsa-miR-3202	CLIP-seq
MIRT1240309	hsa-miR-3690	CLIP-seq
MIRT1240310	hsa-miR-4254	CLIP-seq
MIRT1240311	hsa-miR-4292	CLIP-seq
MIRT1240312	hsa-miR-4308	CLIP-seq
MIRT1240313	hsa-miR-4721	CLIP-seq
MIRT1240314	hsa-miR-516a-3p	CLIP-seq
MIRT2070665	hsa-miR-1266	CLIP-seq
MIRT2070666	hsa-miR-24	CLIP-seq
MIRT2070667	hsa-miR-3151	CLIP-seq
MIRT1240310	hsa-miR-4254	CLIP-seq
MIRT2070668	hsa-miR-4283	CLIP-seq
MIRT1240311	hsa-miR-4292	CLIP-seq
MIRT1240312	hsa-miR-4308	CLIP-seq
MIRT2070669	hsa-miR-4437	CLIP-seq
MIRT2070670	hsa-miR-4489	CLIP-seq
MIRT2070671	hsa-miR-4518	CLIP-seq
MIRT1240306	hsa-miR-1343	CLIP-seq
MIRT2070667	hsa-miR-3151	CLIP-seq
MIRT2297822	hsa-miR-3689d	CLIP-seq
MIRT1240309	hsa-miR-3690	CLIP-seq
MIRT2297823	hsa-miR-378	CLIP-seq
MIRT2297824	hsa-miR-378b	CLIP-seq
MIRT2297825	hsa-miR-378c	CLIP-seq
MIRT2297826	hsa-miR-378d	CLIP-seq
MIRT2297827	hsa-miR-378e	CLIP-seq
MIRT2297828	hsa-miR-378f	CLIP-seq
MIRT2297829	hsa-miR-378h	CLIP-seq
MIRT2297830	hsa-miR-378i	CLIP-seq
MIRT2297831	hsa-miR-422a	CLIP-seq
MIRT1240310	hsa-miR-4254	CLIP-seq
MIRT2070668	hsa-miR-4283	CLIP-seq
MIRT1240311	hsa-miR-4292	CLIP-seq
MIRT1240312	hsa-miR-4308	CLIP-seq
MIRT2070670	hsa-miR-4489	CLIP-seq
MIRT1240313	hsa-miR-4721	CLIP-seq
MIRT1240314	hsa-miR-516a-3p	CLIP-seq
MIRT2297832	hsa-miR-765	CLIP-seq

Gene ontology (GO)

GO ID	Ontology	Definition	Evidence	Reference
GO:0002244	Process	Hematopoietic progenitor cell differentiation	IBA	21873635
GO:0004630	Function	Phospholipase D activity	ISS
GO:0005634	Component	Nucleus	IBA	21873635
GO:0005634	Component	Nucleus	ISS
GO:0005769	Component	Early endosome	ISS
GO:0005783	Component	Endoplasmic reticulum	IBA	21873635
GO:0005789	Component	Endoplasmic reticulum membrane	ISS
GO:0005789	Component	Endoplasmic reticulum membrane	TAS
GO:0006259	Process	DNA metabolic process	IEA
GO:0006909	Process	Phagocytosis	IBA	21873635
GO:0006909	Process	Phagocytosis	ISS
GO:0006954	Process	Inflammatory response	IEA
GO:0016021	Component	Integral component of membrane	IEA
GO:0032588	Component	Trans-Golgi network membrane	IBA	21873635
GO:0032588	Component	Trans-Golgi network membrane	ISS
GO:0043647	Process	Inositol phosphate metabolic process	TAS
GO:0045087	Process	Innate immune response	IEA
GO:0045145	Function	Single-stranded DNA 5'-3' exodeoxyribonuclease activity	ISS
GO:0045335	Component	Phagocytic vesicle	IBA	21873635
GO:0045335	Component	Phagocytic vesicle	ISS
GO:0090305	Process	Nucleic acid phosphodiester bond hydrolysis	IEA
GO:1900015	Process	Regulation of cytokine production involved in inflammatory response	ISS

Other IDs

• MIM: 618488
• HGNC: 23792
• e!Ensembl: ENSG00000166428

Protein

• UniProt ID: Q96BZ4
• Protein name: 5'-3' exonuclease PLD4 (EC 3.1.16.1) ((S,S)-bis(monoacylglycero)phosphate synthase PLD4) (EC 3.1.4.-) (Phospholipase D family member 4) (Phospholipase D4)
• Protein function: 5'->3' exonuclease that hydrolyzes the phosphodiester bond of single-stranded DNA (ssDNA) and RNA molecules to form nucleoside 3'-monophosphates and 5'-end 5'-hydroxy deoxyribonucleotide/ribonucleotide fragments (PubMed:30111894, PubMed:34620855
• PDB: 8V08
• Family and domains:

  Pfam

  Accession	ID	Position in sequence	Description	Type
  PF13918	PLDc_3	239 → 416	PLD-like domain	Domain

• Sequence:

  MLKPLWKAAVAPTWPCSMPPRRPWDREAGTLQVLGALAVLWLGSVALICLLWQVPRPPTW
  GQVQPKDVPRSWEHGSSPAWEPLEAEARQQRDSCQLVLVESIPQDLPSAAGSPSAQPLGQ
  AWLQLLDTAQESVHVASYYWSLTGPDIGVNDSSSQLGEALLQKLQQLLGRNISLAVATSS
  PTLARTSTDLQVLAARGAHVRQVPMGRLTRGVLHSKFWVVDGRHIYMGSANMDWRSLTQV
  KELGAVIYNCSHLAQDLEKTFQTYWVLGVPKAVLPKTWPQNFSSHFNRFQPFHGLFDGVP
  TTAYFSASPPALCPQGRTRDLEALLAVMGSAQEFIYASVMEYFPTTRFSHPPRYWPVLDN
  ALRAAAFGKGVRVRLLVGCGLNTDPTMFPYLRSLQALSNPAANVSVDVKVFIVPVGNHSN
  IPFSRVNHSKFMVTEKAAYIGTSNWSEDYFSSTAGVGLVVTQSPGAQPAGATVQEQLRQL
  FERDWSSRYAVGLDGQAPGQDCVWQG

• Sequence length: 506

Pathways

KEGG:

Glycerophospholipid metabolism
Ether lipid metabolism
Metabolic pathways

Reactome:

Synthesis of IP3 and IP4 in the cytosol
Role of phospholipids in phagocytosis

Associated diseases

Causal
Disease name	Disease term	dbSNP ID	References
Rheumatoid arthritis	Rheumatoid Arthritis	rs3766379, rs3792876, rs2071592, rs3087456, rs587776843, rs1566328963, rs2240340, rs1557787212	24390342, 22446963
Usher syndrome	Usher Syndrome	rs80338903, rs397518008, rs111033367, rs121912598, rs121912599, rs80338902, rs111033364, rs111033272, rs121912600, rs587776538, rs111033334, rs137852839, rs137852840, rs2133130286, rs104894651, rs730880268, rs397515345, rs587776546, rs104894652, rs121908140, rs121908141, rs1085307049, rs111033258, rs121908142, rs111033267, rs1553776036, rs121908347, rs111033270, rs727502931, rs121908349, rs121908350, rs111033271, rs121908351, rs796051861, rs121908354, rs1307471318, rs137853001, rs199469706, rs111033260, rs137853003, rs137853004, rs1480243085, rs397515359, rs55983148, rs151045328, rs1403777293, rs121908370, rs121909762, rs796051863, rs796051864, rs796051865, rs121909763, rs796051866, rs796051867, rs121965079, rs41298133, rs1555062984, rs28934610, rs121965080, rs121965081, rs121965082, rs121965083, rs35689081, rs121965085, rs1555102843, rs113624356, rs267606932, rs201539845, rs387906700, rs1554135663, rs775098953, rs786200928, rs786205115, rs786205116, rs587776894, rs1589229634, rs1306987034, rs778110397, rs111033415, rs111033206, rs111033180, rs111033201, rs111033290, rs397516295, rs111033233, rs199897298, rs397516303, rs111033178, rs397516304, rs111033347, rs111033403, rs111033187, rs397516308, rs397516315, rs111033174, rs111033448, rs111033182, rs397516317, rs368657015, rs397516321, rs397516322, rs111033215, rs199606180, rs397516323, rs111033192, rs111033232, rs397516326, rs111033198, rs111033486, rs111033283, rs397516330, rs397516332, rs111033284, rs111033285, rs397517329, rs397517342, rs183431253, rs367928692, rs397517350, rs370983472, rs397517353, rs397517367, rs371981035, rs397517451, rs397517452, rs202033121, rs397517925, rs397517932, rs374963432, rs397517964, rs369522997, rs111033379, rs111033264, rs202175091, rs111033265, rs111033418, rs111033382, rs397517973, rs397517974, rs397517976, rs397517977, rs397517978, rs151148854, rs111033526, rs111033518, rs397517981, rs397517983, rs397517984, rs111033385, rs397517988, rs397517989, rs397517990, rs397517994, rs111033273, rs397518003, rs397518010, rs397518011, rs397518012, rs397518013, rs397518014, rs397518015, rs375668376, rs397518021, rs397518022, rs397518023, rs111033386, rs111033268, rs397518029, rs111033280, rs397518036, rs397518039, rs397518041, rs397518043, rs41308425, rs397518048, rs73090721, rs111033263, rs267600727, rs398124618, rs398124619, rs137853923, rs483353055, rs483353056, rs527236132, rs527236131, rs527236133, rs527236139, rs527236138, rs527236137, rs527236124, rs527236135, rs527236136, rs727504551, rs727505116, rs727503731, rs146733615, rs727504867, rs727503715, rs727505343, rs727503723, rs727503725, rs730880349, rs727505337, rs727503736, rs727504893, rs727504301, rs727503329, rs373169422, rs730880367, rs376764423, rs377670513, rs797044491, rs797044492, rs797044510, rs782252317, rs797044511, rs797044516, rs797044518, rs746523071, rs786204428, rs748706627, rs750228923, rs794727408, rs794727579, rs201657446, rs372347027, rs148660051, rs779791079, rs753330544, rs794729204, rs797045113, rs368049814, rs863224941, rs876657624, rs886037762, rs869312182, rs869312180, rs869312179, rs869312178, rs754391973, rs869312181, rs876657415, rs1057519383, rs760225886, rs766590491, rs876657733, rs876657731, rs397517963, rs876657730, rs773404494, rs876657754, rs753886326, rs876657655, rs782255281, rs1555090368, rs878853233, rs775177930, rs368675850, rs878853407, rs878853413, rs878853405, rs878853404, rs765293412, rs878853410, rs878853378, rs751130485, rs886039450, rs886039449, rs748810737, rs886039867, rs886039893, rs886041502, rs750396156, rs371777049, rs773539640, rs886043626, rs1057517533, rs536593247, rs373208120, rs1057516687, rs1057517224, rs989521806, rs1057516560, rs1057516613, rs1057516351, rs1057516472, rs1057516821, rs758921360, rs1057516780, rs1057516268, rs770832663, rs1057516656, rs1057516974, rs1057517325, rs1057517284, rs758685587, rs1057516342, rs201328768, rs757027638, rs781148814, rs138983888, rs1057517261, rs1057517443, rs1057516474, rs1057517150, rs1057517251, rs1057516892, rs758947077, rs370261904, rs1057517048, rs1057516470, rs1057517182, rs1057517264, rs1057516992, rs1057516770, rs138138689, rs377145777, rs201892914, rs376535635, rs374536346, rs752179149, rs1057518826, rs1057519193, rs1057519225, rs369793306, rs759898765, rs397517979, rs199840367, rs1057520662, rs763797356, rs1057520709, rs1060499714, rs1060499716, rs1060499796, rs1060499800, rs1060499801, rs747656448, rs1064793289, rs200712760, rs1064795047, rs1064793745, rs137954284, rs750803248, rs1064795722, rs750358148, rs1064797134, rs1064797136, rs1064797138, rs1064797153, rs753886165, rs1553258031, rs539192853, rs749702843, rs1003869920, rs1553252388, rs762159022, rs1362058696, rs1553252528, rs1553257502, rs1288381992, rs1285853856, rs1388040238, rs751111524, rs1035024403, rs1553298240, rs746551311, rs1215540106, rs780308389, rs1338169194, rs772808534, rs1554090072, rs777309662, rs1554117973, rs749956288, rs1355262412, rs1555051390, rs116892396, rs782166819, rs782063761, rs1555078942, rs1171417339, rs1555090294, rs1199012623, rs1383147250, rs1555069238, rs1461319754, rs750880909, rs1264310782, rs1553299022, rs754768875, rs1555627787, rs1366496013, rs774573692, rs534534437, rs769838859, rs762551629, rs761469964, rs201730567, rs769348776, rs1553327452, rs1553320397, rs757696771, rs199679165, rs143344549, rs777465132, rs769215629, rs769433759, rs1555051455, rs782539587, rs751176116, rs1553268563, rs141672841, rs866435331, rs782077721, rs1553320542, rs1554857840, rs1554877007, rs936479651, rs148695069, rs1561416879, rs765476745, rs768161313, rs1553252499, rs1553248234, rs1553250192, rs1553252041, rs1177257719, rs200871041, rs1553248216, rs1553261478, rs757676723, rs747160949, rs764917754, rs1295968274, rs764182950, rs753505333, rs747063294, rs1553252052, rs367674026, rs779572631, rs1553257707, rs746447649, rs1553268562, rs1553271002, rs1431048303, rs749452910, rs1553273330, rs1553274448, rs779716464, rs1553257705, rs1485173724, rs1553261372, rs1553250050, rs1553285919, rs1553287118, rs1553250150, rs1553299079, rs1162305984, rs1553250184, rs199782530, rs370327669, rs944675223, rs199982344, rs1553313308, rs1553261479, rs988693758, rs760302201, rs1553313810, rs1414935620, rs749726310, rs1380261595, rs770383273, rs993185407, rs483353054, rs1553273412, rs1269642027, rs1553268582, rs762608746, rs780779563, rs1553287070, rs1553294144, rs772124060, rs1553258122, rs775293551, rs1553272201, rs754374132, rs1553300016, rs1553274424, rs1553300558, rs772100045, rs771051185, rs1553272176, rs1553273421, rs143521854, rs1553300340, rs745350407, rs756623509, rs764797292, rs1284826852, rs767078782, rs1342455785, rs1553320451, rs1177198729, rs372927796, rs1553250627, rs1394737087, rs748961218, rs771583281, rs1188025733, rs868562952, rs758571672, rs1553250952, rs1171672823, rs758303489, rs1553257761, rs1484339054, rs1553258097, rs1553258037, rs781223647, rs376155416, rs1553776061, rs1553776112, rs1553776052, rs1553776135, rs1553772595, rs1553776132, rs1554822897, rs1554823229, rs1554833242, rs1554836566, rs1402893508, rs1554882546, rs1554956088, rs1554806149, rs1554903842, rs1168400018, rs1555032952, rs903145299, rs1554934073, rs1554940316, rs1554822703, rs1554823231, rs1554824185, rs1328440878, rs1554833227, rs1554833314, rs1554872194, rs1554833699, rs1554822891, rs756692340, rs1554833249, rs1554852472, rs1554873550, rs1554883705, rs1554956023, rs1554816541, rs1554903979, rs143842048, rs1304228309, rs1555135419, rs147956944, rs1482487617, rs1207247951, rs1317951509, rs1385324903, rs782787126, rs782064437, rs782292032, rs1472566324, rs766641715, rs1555095933, rs1555099541, rs878864531, rs548172627, rs1555067667, rs755934966, rs1558151555, rs1560449207, rs1253419936, rs1564796487, rs1557720377, rs1564634581, rs767797828, rs201866631, rs1262416703, rs750647872, rs765574676, rs781989117, rs1568445893, rs727502919, rs1558111861, rs1561660434, rs1564794944, rs745571683, rs762226905, rs1558141330, rs758660532, rs41314534, rs1301139848, rs777629750, rs1039517349, rs1190307769, rs749314857, rs1564796673, rs1564808024, rs1561441451, rs1561543496, rs377650415, rs1561790371, rs1561843914, rs1316299165, rs1561805689, rs1559982739, rs1561740143, rs1571657875, rs1360258103, rs201863550, rs754970095, rs201205811, rs760858249, rs770329105, rs759187261, rs1200012430, rs1293202153, rs1591095476, rs1571801514, rs1230303971, rs1580905929, rs1581711527, rs1571949388, rs368770647, rs1571783742, rs1572020896, rs759433119, rs1572088481, rs1415484067, rs1415157305, rs1571703770, rs933370216, rs1439933768, rs1580845586, rs765376986, rs1581135405, rs1589950125, rs1590691343, rs1571703801, rs1386612395, rs1576651623, rs1580567084, rs1276890742, rs1591467894, rs1571876788, rs1580864592, rs764583867, rs1571945476, rs1571953449, rs1571686349, rs1571762632, rs1571941511, rs368687374, rs45555435, rs777701725, rs201625237, rs1576631624, rs1581041519, rs1581196586, rs750027965, rs1591286671, rs1591470904, rs1598584825, rs1656419435, rs754834155, rs1657799383, rs1657965422, rs1657996197, rs1662772955, rs1667316878, rs2030619513, rs2034849647, rs2034850724, rs2034948574, rs2036152207, rs1571701069, rs2038569132, rs2039616380, rs929034631, rs1767988429, rs1416386069, rs1841885880, rs1850678559, rs1850961650, rs1954240719, rs782396605, rs1956938352, rs1571947757, rs1358947010, rs1571701072, rs1571801788, rs1384677442, rs1292050472, rs1591286221, rs1555067598, rs1591369118, rs1296612982, rs760251968, rs1571929573, rs774677256, rs1571657777, rs376674482, rs746618021, rs201845656, rs1580624630, rs1591467918, rs750321557, rs1403618793, rs780036975, rs1424639717, rs1667314337, rs2032147505, rs201529124, rs2034899784, rs376591221, rs1364987785, rs2039614529, rs756193571, rs771766431, rs759981467, rs782281371, rs778934538, rs1359109336, rs767630412, rs1841212177, rs758482449, rs1656901821, rs1662771528, rs1665132445, rs769198746, rs2034852728, rs757154662, rs757525434, rs1758488956, rs1764301206, rs749747871, rs780609120, rs1235430504, rs2034951427, rs1661659605, rs1657036615, rs2034938852	28041643