PDCD2_HUMAN
ID PDCD2_HUMAN Reviewed; 344 AA.
AC Q16342; E9PCU7; F5GYS7; Q58HM9; Q58HN0; Q9UH12;
DT 01-DEC-2000, integrated into UniProtKB/Swiss-Prot.
DT 01-FEB-2003, sequence version 2.
DT 03-AUG-2022, entry version 184.
DE RecName: Full=Programmed cell death protein 2;
DE AltName: Full=Zinc finger MYND domain-containing protein 7;
DE AltName: Full=Zinc finger protein Rp-8;
GN Name=PDCD2; Synonyms=RP8, ZMYND7;
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] (ISOFORM 1).
RC TISSUE=Fetal lung;
RX PubMed=7606924; DOI=10.1159/000134058;
RA Kawakami T., Furukawa Y., Sudo K., Saito H., Takami S., Takahashi E.,
RA Nakamura Y.;
RT "Isolation and mapping of a human gene (PDCD2) that is highly homologous to
RT Rp8, a rat gene associated with programmed cell death.";
RL Cytogenet. Cell Genet. 71:41-43(1995).
RN [2]
RP NUCLEOTIDE SEQUENCE [MRNA] (ISOFORMS 2 AND 3).
RA Chen Q., Qian K.X.;
RT "Cloning of cDNAs with PDCD_2 domain and their expression during apoptosis
RT of HEK293T cells.";
RL Submitted (MAR-2005) to the EMBL/GenBank/DDBJ databases.
RN [3]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 2).
RC TISSUE=Brain;
RX PubMed=14702039; DOI=10.1038/ng1285;
RA Ota T., Suzuki Y., Nishikawa T., Otsuki T., Sugiyama T., Irie R.,
RA Wakamatsu A., Hayashi K., Sato H., Nagai K., Kimura K., Makita H.,
RA Sekine M., Obayashi M., Nishi T., Shibahara T., Tanaka T., Ishii S.,
RA Yamamoto J., Saito K., Kawai Y., Isono Y., Nakamura Y., Nagahari K.,
RA Murakami K., Yasuda T., Iwayanagi T., Wagatsuma M., Shiratori A., Sudo H.,
RA Hosoiri T., Kaku Y., Kodaira H., Kondo H., Sugawara M., Takahashi M.,
RA Kanda K., Yokoi T., Furuya T., Kikkawa E., Omura Y., Abe K., Kamihara K.,
RA Katsuta N., Sato K., Tanikawa M., Yamazaki M., Ninomiya K., Ishibashi T.,
RA Yamashita H., Murakawa K., Fujimori K., Tanai H., Kimata M., Watanabe M.,
RA Hiraoka S., Chiba Y., Ishida S., Ono Y., Takiguchi S., Watanabe S.,
RA Yosida M., Hotuta T., Kusano J., Kanehori K., Takahashi-Fujii A., Hara H.,
RA Tanase T.-O., Nomura Y., Togiya S., Komai F., Hara R., Takeuchi K.,
RA Arita M., Imose N., Musashino K., Yuuki H., Oshima A., Sasaki N.,
RA Aotsuka S., Yoshikawa Y., Matsunawa H., Ichihara T., Shiohata N., Sano S.,
RA Moriya S., Momiyama H., Satoh N., Takami S., Terashima Y., Suzuki O.,
RA Nakagawa S., Senoh A., Mizoguchi H., Goto Y., Shimizu F., Wakebe H.,
RA Hishigaki H., Watanabe T., Sugiyama A., Takemoto M., Kawakami B.,
RA Yamazaki M., Watanabe K., Kumagai A., Itakura S., Fukuzumi Y., Fujimori Y.,
RA Komiyama M., Tashiro H., Tanigami A., Fujiwara T., Ono T., Yamada K.,
RA Fujii Y., Ozaki K., Hirao M., Ohmori Y., Kawabata A., Hikiji T.,
RA Kobatake N., Inagaki H., Ikema Y., Okamoto S., Okitani R., Kawakami T.,
RA Noguchi S., Itoh T., Shigeta K., Senba T., Matsumura K., Nakajima Y.,
RA Mizuno T., Morinaga M., Sasaki M., Togashi T., Oyama M., Hata H.,
RA Watanabe M., Komatsu T., Mizushima-Sugano J., Satoh T., Shirai Y.,
RA Takahashi Y., Nakagawa K., Okumura K., Nagase T., Nomura N., Kikuchi H.,
RA Masuho Y., Yamashita R., Nakai K., Yada T., Nakamura Y., Ohara O.,
RA Isogai T., Sugano S.;
RT "Complete sequencing and characterization of 21,243 full-length human
RT cDNAs.";
RL Nat. Genet. 36:40-45(2004).
RN [4]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RX PubMed=14574404; DOI=10.1038/nature02055;
RA Mungall A.J., Palmer S.A., Sims S.K., Edwards C.A., Ashurst J.L.,
RA Wilming L., Jones M.C., Horton R., Hunt S.E., Scott C.E., Gilbert J.G.R.,
RA Clamp M.E., Bethel G., Milne S., Ainscough R., Almeida J.P., Ambrose K.D.,
RA Andrews T.D., Ashwell R.I.S., Babbage A.K., Bagguley C.L., Bailey J.,
RA Banerjee R., Barker D.J., Barlow K.F., Bates K., Beare D.M., Beasley H.,
RA Beasley O., Bird C.P., Blakey S.E., Bray-Allen S., Brook J., Brown A.J.,
RA Brown J.Y., Burford D.C., Burrill W., Burton J., Carder C., Carter N.P.,
RA Chapman J.C., Clark S.Y., Clark G., Clee C.M., Clegg S., Cobley V.,
RA Collier R.E., Collins J.E., Colman L.K., Corby N.R., Coville G.J.,
RA Culley K.M., Dhami P., Davies J., Dunn M., Earthrowl M.E., Ellington A.E.,
RA Evans K.A., Faulkner L., Francis M.D., Frankish A., Frankland J.,
RA French L., Garner P., Garnett J., Ghori M.J., Gilby L.M., Gillson C.J.,
RA Glithero R.J., Grafham D.V., Grant M., Gribble S., Griffiths C.,
RA Griffiths M.N.D., Hall R., Halls K.S., Hammond S., Harley J.L., Hart E.A.,
RA Heath P.D., Heathcott R., Holmes S.J., Howden P.J., Howe K.L., Howell G.R.,
RA Huckle E., Humphray S.J., Humphries M.D., Hunt A.R., Johnson C.M.,
RA Joy A.A., Kay M., Keenan S.J., Kimberley A.M., King A., Laird G.K.,
RA Langford C., Lawlor S., Leongamornlert D.A., Leversha M., Lloyd C.R.,
RA Lloyd D.M., Loveland J.E., Lovell J., Martin S., Mashreghi-Mohammadi M.,
RA Maslen G.L., Matthews L., McCann O.T., McLaren S.J., McLay K., McMurray A.,
RA Moore M.J.F., Mullikin J.C., Niblett D., Nickerson T., Novik K.L.,
RA Oliver K., Overton-Larty E.K., Parker A., Patel R., Pearce A.V., Peck A.I.,
RA Phillimore B.J.C.T., Phillips S., Plumb R.W., Porter K.M., Ramsey Y.,
RA Ranby S.A., Rice C.M., Ross M.T., Searle S.M., Sehra H.K., Sheridan E.,
RA Skuce C.D., Smith S., Smith M., Spraggon L., Squares S.L., Steward C.A.,
RA Sycamore N., Tamlyn-Hall G., Tester J., Theaker A.J., Thomas D.W.,
RA Thorpe A., Tracey A., Tromans A., Tubby B., Wall M., Wallis J.M.,
RA West A.P., White S.S., Whitehead S.L., Whittaker H., Wild A., Willey D.J.,
RA Wilmer T.E., Wood J.M., Wray P.W., Wyatt J.C., Young L., Younger R.M.,
RA Bentley D.R., Coulson A., Durbin R.M., Hubbard T., Sulston J.E., Dunham I.,
RA Rogers J., Beck S.;
RT "The DNA sequence and analysis of human chromosome 6.";
RL Nature 425:805-811(2003).
RN [5]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 1).
RC TISSUE=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 UBIQUITINATION BY PRKN.
RX PubMed=19146857; DOI=10.1016/j.febslet.2008.12.055;
RA Fukae J., Sato S., Shiba K., Sato K., Mori H., Sharp P.A., Mizuno Y.,
RA Hattori N.;
RT "Programmed cell death-2 isoform1 is ubiquitinated by parkin and increased
RT in the substantia nigra of patients with autosomal recessive Parkinson's
RT disease.";
RL FEBS Lett. 583:521-525(2009).
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).
CC -!- FUNCTION: May be a DNA-binding protein with a regulatory function. May
CC play an important role in cell death and/or in regulation of cell
CC proliferation.
CC -!- INTERACTION:
CC Q16342; P08574: CYC1; NbExp=3; IntAct=EBI-359462, EBI-1224514;
CC Q16342; Q92993: KAT5; NbExp=3; IntAct=EBI-359462, EBI-399080;
CC Q16342; Q8TAP4-4: LMO3; NbExp=3; IntAct=EBI-359462, EBI-11742507;
CC Q16342; O60260: PRKN; NbExp=5; IntAct=EBI-359462, EBI-716346;
CC Q16342; Q15047-2: SETDB1; NbExp=3; IntAct=EBI-359462, EBI-9090795;
CC Q16342; Q8IYX1: TBC1D21; NbExp=3; IntAct=EBI-359462, EBI-12018146;
CC Q16342; P61981: YWHAG; NbExp=3; IntAct=EBI-359462, EBI-359832;
CC -!- SUBCELLULAR LOCATION: Nucleus {ECO:0000305}.
CC -!- ALTERNATIVE PRODUCTS:
CC Event=Alternative splicing; Named isoforms=5;
CC Name=1;
CC IsoId=Q16342-1; Sequence=Displayed;
CC Name=2;
CC IsoId=Q16342-2; Sequence=VSP_042828, VSP_042829;
CC Name=3;
CC IsoId=Q16342-3; Sequence=VSP_042828;
CC Name=4;
CC IsoId=Q16342-4; Sequence=VSP_055159, VSP_055162;
CC Name=5;
CC IsoId=Q16342-5; Sequence=VSP_042828, VSP_055160, VSP_055161;
CC -!- TISSUE SPECIFICITY: Ubiquitous.
CC -!- PTM: Ubiquitinated by PRKN, promoting proteasomal degradation.
CC {ECO:0000269|PubMed:19146857}.
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DR EMBL; S78085; AAB34865.1; -; mRNA.
DR EMBL; AY948416; AAX51225.1; -; mRNA.
DR EMBL; AY948417; AAX51226.1; -; mRNA.
DR EMBL; AK297343; BAG59795.1; -; mRNA.
DR EMBL; AL031259; -; NOT_ANNOTATED_CDS; Genomic_DNA.
DR EMBL; BC008378; AAH08378.1; -; mRNA.
DR CCDS; CCDS47521.1; -. [Q16342-4]
DR CCDS; CCDS5316.1; -. [Q16342-1]
DR CCDS; CCDS56460.1; -. [Q16342-2]
DR CCDS; CCDS56461.1; -. [Q16342-3]
DR CCDS; CCDS56462.1; -. [Q16342-5]
DR PIR; I52969; I52969.
DR RefSeq; NP_001186391.1; NM_001199462.1. [Q16342-3]
DR RefSeq; NP_001186392.1; NM_001199463.1. [Q16342-2]
DR RefSeq; NP_001186393.1; NM_001199464.1. [Q16342-5]
DR RefSeq; NP_002589.2; NM_002598.3. [Q16342-1]
DR RefSeq; NP_659005.1; NM_144781.2. [Q16342-4]
DR AlphaFoldDB; Q16342; -.
DR BioGRID; 111161; 45.
DR CORUM; Q16342; -.
DR DIP; DIP-27594N; -.
DR IntAct; Q16342; 17.
DR MINT; Q16342; -.
DR STRING; 9606.ENSP00000439467; -.
DR iPTMnet; Q16342; -.
DR PhosphoSitePlus; Q16342; -.
DR BioMuta; PDCD2; -.
DR DMDM; 28202261; -.
DR EPD; Q16342; -.
DR jPOST; Q16342; -.
DR MassIVE; Q16342; -.
DR MaxQB; Q16342; -.
DR PaxDb; Q16342; -.
DR PeptideAtlas; Q16342; -.
DR PRIDE; Q16342; -.
DR ProteomicsDB; 19518; -.
DR ProteomicsDB; 24829; -.
DR ProteomicsDB; 60856; -. [Q16342-1]
DR ProteomicsDB; 60857; -. [Q16342-2]
DR ProteomicsDB; 60858; -. [Q16342-3]
DR Antibodypedia; 20097; 116 antibodies from 26 providers.
DR DNASU; 5134; -.
DR Ensembl; ENST00000392090.6; ENSP00000375940.2; ENSG00000071994.11. [Q16342-3]
DR Ensembl; ENST00000443345.2; ENSP00000397272.2; ENSG00000071994.11. [Q16342-2]
DR Ensembl; ENST00000453163.6; ENSP00000402524.2; ENSG00000071994.11. [Q16342-4]
DR Ensembl; ENST00000537445.5; ENSP00000440572.1; ENSG00000071994.11. [Q16342-5]
DR Ensembl; ENST00000541970.6; ENSP00000439467.1; ENSG00000071994.11. [Q16342-1]
DR GeneID; 5134; -.
DR KEGG; hsa:5134; -.
DR MANE-Select; ENST00000541970.6; ENSP00000439467.1; NM_002598.4; NP_002589.2.
DR UCSC; uc003qxv.4; human. [Q16342-1]
DR CTD; 5134; -.
DR DisGeNET; 5134; -.
DR GeneCards; PDCD2; -.
DR HGNC; HGNC:8762; PDCD2.
DR HPA; ENSG00000071994; Low tissue specificity.
DR MIM; 600866; gene.
DR neXtProt; NX_Q16342; -.
DR OpenTargets; ENSG00000071994; -.
DR PharmGKB; PA33112; -.
DR VEuPathDB; HostDB:ENSG00000071994; -.
DR eggNOG; KOG2061; Eukaryota.
DR GeneTree; ENSGT00940000156603; -.
DR HOGENOM; CLU_034893_2_0_1; -.
DR InParanoid; Q16342; -.
DR OMA; ENLDWGV; -.
DR OrthoDB; 1181470at2759; -.
DR PhylomeDB; Q16342; -.
DR TreeFam; TF313722; -.
DR PathwayCommons; Q16342; -.
DR SignaLink; Q16342; -.
DR BioGRID-ORCS; 5134; 513 hits in 1058 CRISPR screens.
DR ChiTaRS; PDCD2; human.
DR GeneWiki; PDCD2; -.
DR GenomeRNAi; 5134; -.
DR Pharos; Q16342; Tbio.
DR PRO; PR:Q16342; -.
DR Proteomes; UP000005640; Chromosome 6.
DR RNAct; Q16342; protein.
DR Bgee; ENSG00000071994; Expressed in body of pancreas and 193 other tissues.
DR ExpressionAtlas; Q16342; baseline and differential.
DR Genevisible; Q16342; HS.
DR GO; GO:0005737; C:cytoplasm; IEA:InterPro.
DR GO; GO:0070062; C:extracellular exosome; HDA:UniProtKB.
DR GO; GO:0005634; C:nucleus; IBA:GO_Central.
DR GO; GO:0003677; F:DNA binding; IEA:UniProtKB-KW.
DR GO; GO:0019899; F:enzyme binding; IPI:UniProtKB.
DR GO; GO:0046872; F:metal ion binding; IEA:UniProtKB-KW.
DR GO; GO:0006919; P:activation of cysteine-type endopeptidase activity involved in apoptotic process; IDA:UniProtKB.
DR GO; GO:0006915; P:apoptotic process; TAS:ProtInc.
DR GO; GO:0043065; P:positive regulation of apoptotic process; IDA:UniProtKB.
DR GO; GO:1902035; P:positive regulation of hematopoietic stem cell proliferation; IMP:UniProtKB.
DR GO; GO:1901532; P:regulation of hematopoietic progenitor cell differentiation; IMP:UniProtKB.
DR InterPro; IPR007320; PDCD2_C.
DR InterPro; IPR002893; Znf_MYND.
DR Pfam; PF04194; PDCD2_C; 1.
DR Pfam; PF01753; zf-MYND; 1.
DR PROSITE; PS01360; ZF_MYND_1; 1.
DR PROSITE; PS50865; ZF_MYND_2; 1.
PE 1: Evidence at protein level;
KW Alternative splicing; Apoptosis; DNA-binding; Metal-binding; Nucleus;
KW Reference proteome; Ubl conjugation; Zinc; Zinc-finger.
FT CHAIN 1..344
FT /note="Programmed cell death protein 2"
FT /id="PRO_0000218304"
FT ZN_FING 135..172
FT /note="MYND-type; atypical"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00134"
FT BINDING 135
FT /ligand="Zn(2+)"
FT /ligand_id="ChEBI:CHEBI:29105"
FT /ligand_label="1"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00134"
FT BINDING 138
FT /ligand="Zn(2+)"
FT /ligand_id="ChEBI:CHEBI:29105"
FT /ligand_label="1"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00134"
FT BINDING 146
FT /ligand="Zn(2+)"
FT /ligand_id="ChEBI:CHEBI:29105"
FT /ligand_label="2"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00134"
FT BINDING 149
FT /ligand="Zn(2+)"
FT /ligand_id="ChEBI:CHEBI:29105"
FT /ligand_label="2"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00134"
FT BINDING 155
FT /ligand="Zn(2+)"
FT /ligand_id="ChEBI:CHEBI:29105"
FT /ligand_label="1"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00134"
FT BINDING 159
FT /ligand="Zn(2+)"
FT /ligand_id="ChEBI:CHEBI:29105"
FT /ligand_label="1"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00134"
FT BINDING 168
FT /ligand="Zn(2+)"
FT /ligand_id="ChEBI:CHEBI:29105"
FT /ligand_label="2"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00134"
FT BINDING 172
FT /ligand="Zn(2+)"
FT /ligand_id="ChEBI:CHEBI:29105"
FT /ligand_label="2"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00134"
FT VAR_SEQ 31..63
FT /note="Missing (in isoform 2, isoform 3 and isoform 5)"
FT /evidence="ECO:0000303|PubMed:14702039, ECO:0000303|Ref.2"
FT /id="VSP_042828"
FT VAR_SEQ 221..344
FT /note="EALEEELDSMAKHESREDKIFQKFKTQIALEPEQILRYGRGIAPIWISGENI
FT PQEKDIPDCPCGAKRILEFQVMPQLLNYLKADRLGKSIDWGILAVFTCAESCSLGTGYT
FT EEFVWKQDVTDTP -> KQFQDFIH (in isoform 2)"
FT /evidence="ECO:0000303|PubMed:14702039, ECO:0000303|Ref.2"
FT /id="VSP_042829"
FT VAR_SEQ 221..228
FT /note="EALEEELD -> KQFQDFIH (in isoform 4)"
FT /evidence="ECO:0000305"
FT /id="VSP_055159"
FT VAR_SEQ 221
FT /note="E -> I (in isoform 5)"
FT /evidence="ECO:0000305"
FT /id="VSP_055160"
FT VAR_SEQ 222..344
FT /note="Missing (in isoform 5)"
FT /evidence="ECO:0000305"
FT /id="VSP_055161"
FT VAR_SEQ 229..344
FT /note="Missing (in isoform 4)"
FT /evidence="ECO:0000305"
FT /id="VSP_055162"
FT CONFLICT 226
FT /note="E -> G (in Ref. 1; AAB34865)"
FT /evidence="ECO:0000305"
FT CONFLICT 317
FT /note="V -> A (in Ref. 1; AAB34865)"
FT /evidence="ECO:0000305"
SQ SEQUENCE 344 AA; 38592 MW; F3E7BA2C9FBAFD0E CRC64;
MAAAGARPVE LGFAESAPAW RLRSEQFPSK VGGRPAWLGA AGLPGPQALA CELCGRPLSF
LLQVYAPLPG RPDAFHRCIF LFCCREQPCC AGLRVFRNQL PRKNDFYSYE PPSENPPPET
GESVCLQLKS GAHLCRVCGC LGPKTCSRCH KAYYCSKEHQ TLDWRLGHKQ ACAQPDHLDH
IIPDHNFLFP EFEIVIETED EIMPEVVEKE DYSEIIGSMG EALEEELDSM AKHESREDKI
FQKFKTQIAL EPEQILRYGR GIAPIWISGE NIPQEKDIPD CPCGAKRILE FQVMPQLLNY
LKADRLGKSI DWGILAVFTC AESCSLGTGY TEEFVWKQDV TDTP
