Skip Header

You are using a version of Internet Explorer that may not display all features of this website. Please upgrade to a modern browser.
Contribute Send feedback
Read comments (?) or add your own

Q16342 (PDCD2_HUMAN) Reviewed, UniProtKB/Swiss-Prot

Last modified July 9, 2014. Version 131. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (3) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Interactions·Alt products·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
Programmed cell death protein 2
Alternative name(s):
Zinc finger MYND domain-containing protein 7
Zinc finger protein Rp-8
Gene names
Name:PDCD2
Synonyms:RP8, ZMYND7
OrganismHomo sapiens (Human) [Reference proteome]
Taxonomic identifier9606 [NCBI]
Taxonomic lineageEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo

Protein attributes

Sequence length344 AA.
Sequence statusComplete.
Protein existenceEvidence at protein level

General annotation (Comments)

Function

May be a DNA-binding protein with a regulatory function. May play an important role in cell death and/or in regulation of cell proliferation.

Subcellular location

Nucleus Potential.

Tissue specificity

Ubiquitous.

Post-translational modification

Ubiquitinated by PARK2, promoting proteasomal degradation. Ref.6

Sequence similarities

Contains 1 MYND-type zinc finger.

Ontologies

Keywords
   Biological processApoptosis
   Cellular componentNucleus
   Coding sequence diversityAlternative splicing
   DomainZinc-finger
   LigandDNA-binding
Metal-binding
Zinc
   PTMUbl conjugation
   Technical termComplete proteome
Reference proteome
Gene Ontology (GO)
   Biological_processapoptotic process

Traceable author statement Ref.1. Source: ProtInc

   Cellular_componentcytoplasm

Inferred from electronic annotation. Source: InterPro

extracellular vesicular exosome

Inferred from direct assay PubMed 19056867. Source: UniProt

nucleus

Inferred from electronic annotation. Source: UniProtKB-SubCell

   Molecular_functionDNA binding

Inferred from electronic annotation. Source: UniProtKB-KW

enzyme binding

Inferred from physical interaction PubMed 23382074. Source: UniProt

metal ion binding

Inferred from electronic annotation. Source: UniProtKB-KW

protein binding

Inferred from physical interaction Ref.6. Source: IntAct

Complete GO annotation...

Binary interactions

With

Entry

#Exp.

IntAct

Notes

PARK2O602605EBI-359462,EBI-716346

Alternative products

This entry describes 5 isoforms produced by alternative splicing. [Align] [Select]
Isoform 1 (identifier: Q16342-1)

This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.
Isoform 2 (identifier: Q16342-2)

The sequence of this isoform differs from the canonical sequence as follows:
     31-63: Missing.
     221-344: EALEEELDSM...VWKQDVTDTP → KQFQDFIH
Isoform 3 (identifier: Q16342-3)

The sequence of this isoform differs from the canonical sequence as follows:
     31-63: Missing.
Isoform 4 (identifier: Q16342-4)

The sequence of this isoform differs from the canonical sequence as follows:
     221-228: EALEEELD → KQFQDFIH
     229-344: Missing.
Note: No experimental confirmation available. Gene prediction based on partial EST data.
Isoform 5 (identifier: Q16342-5)

The sequence of this isoform differs from the canonical sequence as follows:
     31-63: Missing.
     221-221: E → I
     222-344: Missing.
Note: No experimental confirmation available. Gene prediction based on partial EST data.

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 344344Programmed cell death protein 2
PRO_0000218304

Regions

Zinc finger135 – 17238MYND-type

Natural variations

Alternative sequence31 – 6333Missing in isoform 2, isoform 3 and isoform 5.
VSP_042828
Alternative sequence221 – 344124EALEE…VTDTP → KQFQDFIH in isoform 2.
VSP_042829
Alternative sequence221 – 2288EALEEELD → KQFQDFIH in isoform 4.
VSP_055159
Alternative sequence2211E → I in isoform 5.
VSP_055160
Alternative sequence222 – 344123Missing in isoform 5.
VSP_055161
Alternative sequence229 – 344116Missing in isoform 4.
VSP_055162

Experimental info

Sequence conflict2261E → G in AAB34865. Ref.1
Sequence conflict3171V → A in AAB34865. Ref.1

Sequences

Sequence LengthMass (Da)Tools
Isoform 1 [UniParc].

Last modified February 1, 2003. Version 2.
Checksum: F3E7BA2C9FBAFD0E

FASTA34438,592
        10         20         30         40         50         60 
MAAAGARPVE LGFAESAPAW RLRSEQFPSK VGGRPAWLGA AGLPGPQALA CELCGRPLSF 

        70         80         90        100        110        120 
LLQVYAPLPG RPDAFHRCIF LFCCREQPCC AGLRVFRNQL PRKNDFYSYE PPSENPPPET 

       130        140        150        160        170        180 
GESVCLQLKS GAHLCRVCGC LGPKTCSRCH KAYYCSKEHQ TLDWRLGHKQ ACAQPDHLDH 

       190        200        210        220        230        240 
IIPDHNFLFP EFEIVIETED EIMPEVVEKE DYSEIIGSMG EALEEELDSM AKHESREDKI 

       250        260        270        280        290        300 
FQKFKTQIAL EPEQILRYGR GIAPIWISGE NIPQEKDIPD CPCGAKRILE FQVMPQLLNY 

       310        320        330        340 
LKADRLGKSI DWGILAVFTC AESCSLGTGY TEEFVWKQDV TDTP 

« Hide

Isoform 2 [UniParc].

Checksum: 2A29B0D0A276CB6D
Show »

FASTA19522,230
Isoform 3 [UniParc].

Checksum: 2690DDD960B82B1C
Show »

FASTA31135,290
Isoform 4 [UniParc].

Checksum: 7BE1A0F6BE9306FD
Show »

FASTA22825,532
Isoform 5 [UniParc].

Checksum: DE1D2BC8F2529930
Show »

FASTA18821,299

References

« Hide 'large scale' references
[1]"Isolation and mapping of a human gene (PDCD2) that is highly homologous to Rp8, a rat gene associated with programmed cell death."
Kawakami T., Furukawa Y., Sudo K., Saito H., Takami S., Takahashi E., Nakamura Y.
Cytogenet. Cell Genet. 71:41-43(1995) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 1).
Tissue: Fetal lung.
[2]"Cloning of cDNAs with PDCD_2 domain and their expression during apoptosis of HEK293T cells."
Chen Q., Qian K.X.
Submitted (MAR-2005) to the EMBL/GenBank/DDBJ databases
Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORMS 2 AND 3).
[3]"Complete sequencing and characterization of 21,243 full-length human cDNAs."
Ota T., Suzuki Y., Nishikawa T., Otsuki T., Sugiyama T., Irie R., Wakamatsu A., Hayashi K., Sato H., Nagai K., Kimura K., Makita H., Sekine M., Obayashi M., Nishi T., Shibahara T., Tanaka T., Ishii S. expand/collapse author list , Yamamoto J., Saito K., Kawai Y., Isono Y., Nakamura Y., Nagahari K., Murakami K., Yasuda T., Iwayanagi T., Wagatsuma M., Shiratori A., Sudo H., Hosoiri T., Kaku Y., Kodaira H., Kondo H., Sugawara M., Takahashi M., Kanda K., Yokoi T., Furuya T., Kikkawa E., Omura Y., Abe K., Kamihara K., Katsuta N., Sato K., Tanikawa M., Yamazaki M., Ninomiya K., Ishibashi T., Yamashita H., Murakawa K., Fujimori K., Tanai H., Kimata M., Watanabe M., Hiraoka S., Chiba Y., Ishida S., Ono Y., Takiguchi S., Watanabe S., Yosida M., Hotuta T., Kusano J., Kanehori K., Takahashi-Fujii A., Hara H., Tanase T.-O., Nomura Y., Togiya S., Komai F., Hara R., Takeuchi K., Arita M., Imose N., Musashino K., Yuuki H., Oshima A., Sasaki N., Aotsuka S., Yoshikawa Y., Matsunawa H., Ichihara T., Shiohata N., Sano S., Moriya S., Momiyama H., Satoh N., Takami S., Terashima Y., Suzuki O., Nakagawa S., Senoh A., Mizoguchi H., Goto Y., Shimizu F., Wakebe H., Hishigaki H., Watanabe T., Sugiyama A., Takemoto M., Kawakami B., Yamazaki M., Watanabe K., Kumagai A., Itakura S., Fukuzumi Y., Fujimori Y., Komiyama M., Tashiro H., Tanigami A., Fujiwara T., Ono T., Yamada K., Fujii Y., Ozaki K., Hirao M., Ohmori Y., Kawabata A., Hikiji T., Kobatake N., Inagaki H., Ikema Y., Okamoto S., Okitani R., Kawakami T., Noguchi S., Itoh T., Shigeta K., Senba T., Matsumura K., Nakajima Y., Mizuno T., Morinaga M., Sasaki M., Togashi T., Oyama M., Hata H., Watanabe M., Komatsu T., Mizushima-Sugano J., Satoh T., Shirai Y., Takahashi Y., Nakagawa K., Okumura K., Nagase T., Nomura N., Kikuchi H., Masuho Y., Yamashita R., Nakai K., Yada T., Nakamura Y., Ohara O., Isogai T., Sugano S.
Nat. Genet. 36:40-45(2004) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 2).
Tissue: Brain.
[4]"The DNA sequence and analysis of human chromosome 6."
Mungall A.J., Palmer S.A., Sims S.K., Edwards C.A., Ashurst J.L., Wilming L., Jones M.C., Horton R., Hunt S.E., Scott C.E., Gilbert J.G.R., Clamp M.E., Bethel G., Milne S., Ainscough R., Almeida J.P., Ambrose K.D., Andrews T.D. expand/collapse author list , Ashwell R.I.S., Babbage A.K., Bagguley C.L., Bailey J., Banerjee R., Barker D.J., Barlow K.F., Bates K., Beare D.M., Beasley H., Beasley O., Bird C.P., Blakey S.E., Bray-Allen S., Brook J., Brown A.J., Brown J.Y., Burford D.C., Burrill W., Burton J., Carder C., Carter N.P., Chapman J.C., Clark S.Y., Clark G., Clee C.M., Clegg S., Cobley V., Collier R.E., Collins J.E., Colman L.K., Corby N.R., Coville G.J., Culley K.M., Dhami P., Davies J., Dunn M., Earthrowl M.E., Ellington A.E., Evans K.A., Faulkner L., Francis M.D., Frankish A., Frankland J., French L., Garner P., Garnett J., Ghori M.J., Gilby L.M., Gillson C.J., Glithero R.J., Grafham D.V., Grant M., Gribble S., Griffiths C., Griffiths M.N.D., Hall R., Halls K.S., Hammond S., Harley J.L., Hart E.A., Heath P.D., Heathcott R., Holmes S.J., Howden P.J., Howe K.L., Howell G.R., Huckle E., Humphray S.J., Humphries M.D., Hunt A.R., Johnson C.M., Joy A.A., Kay M., Keenan S.J., Kimberley A.M., King A., Laird G.K., Langford C., Lawlor S., Leongamornlert D.A., Leversha M., Lloyd C.R., Lloyd D.M., Loveland J.E., Lovell J., Martin S., Mashreghi-Mohammadi M., Maslen G.L., Matthews L., McCann O.T., McLaren S.J., McLay K., McMurray A., Moore M.J.F., Mullikin J.C., Niblett D., Nickerson T., Novik K.L., Oliver K., Overton-Larty E.K., Parker A., Patel R., Pearce A.V., Peck A.I., Phillimore B.J.C.T., Phillips S., Plumb R.W., Porter K.M., Ramsey Y., Ranby S.A., Rice C.M., Ross M.T., Searle S.M., Sehra H.K., Sheridan E., Skuce C.D., Smith S., Smith M., Spraggon L., Squares S.L., Steward C.A., Sycamore N., Tamlyn-Hall G., Tester J., Theaker A.J., Thomas D.W., Thorpe A., Tracey A., Tromans A., Tubby B., Wall M., Wallis J.M., West A.P., White S.S., Whitehead S.L., Whittaker H., Wild A., Willey D.J., Wilmer T.E., Wood J.M., Wray P.W., Wyatt J.C., Young L., Younger R.M., Bentley D.R., Coulson A., Durbin R.M., Hubbard T., Sulston J.E., Dunham I., Rogers J., Beck S.
Nature 425:805-811(2003) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
[5]"The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC)."
The MGC Project Team
Genome Res. 14:2121-2127(2004) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 1).
Tissue: Lung.
[6]"Programmed cell death-2 isoform1 is ubiquitinated by parkin and increased in the substantia nigra of patients with autosomal recessive Parkinson's disease."
Fukae J., Sato S., Shiba K., Sato K., Mori H., Sharp P.A., Mizuno Y., Hattori N.
FEBS Lett. 583:521-525(2009) [PubMed] [Europe PMC] [Abstract]
Cited for: UBIQUITINATION BY PARK2.
[7]"Initial characterization of the human central proteome."
Burkard T.R., Planyavsky M., Kaupe I., Breitwieser F.P., Buerckstuemmer T., Bennett K.L., Superti-Furga G., Colinge J.
BMC Syst. Biol. 5:17-17(2011) [PubMed] [Europe PMC] [Abstract]
Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
+Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
S78085 mRNA. Translation: AAB34865.1.
AY948416 mRNA. Translation: AAX51225.1.
AY948417 mRNA. Translation: AAX51226.1.
AK297343 mRNA. Translation: BAG59795.1.
AL031259 Genomic DNA. Translation: CAA20285.1.
BC008378 mRNA. Translation: AAH08378.1.
CCDSCCDS5316.1. [Q16342-1]
CCDS56460.1. [Q16342-2]
CCDS56461.1. [Q16342-3]
PIRI52969.
RefSeqNP_001186391.1. NM_001199462.1. [Q16342-3]
NP_001186392.1. NM_001199463.1. [Q16342-2]
NP_001186393.1. NM_001199464.1.
NP_002589.2. NM_002598.3. [Q16342-1]
UniGeneHs.367900.

3D structure databases

ProteinModelPortalQ16342.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

BioGrid111161. 8 interactions.
DIPDIP-27594N.
IntActQ16342. 7 interactions.
MINTMINT-1133310.
STRING9606.ENSP00000167218.

PTM databases

PhosphoSiteQ16342.

Polymorphism databases

DMDM28202261.

Proteomic databases

MaxQBQ16342.
PaxDbQ16342.
PRIDEQ16342.

Protocols and materials databases

DNASU5134.
StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblENST00000392090; ENSP00000375940; ENSG00000071994. [Q16342-3]
ENST00000443345; ENSP00000397272; ENSG00000071994. [Q16342-2]
ENST00000453163; ENSP00000402524; ENSG00000071994.
ENST00000537445; ENSP00000440572; ENSG00000071994.
ENST00000541970; ENSP00000439467; ENSG00000071994. [Q16342-1]
GeneID5134.
KEGGhsa:5134.
UCSCuc003qxv.3. human. [Q16342-3]
uc003qxw.3. human. [Q16342-1]
uc003qxy.3. human. [Q16342-2]

Organism-specific databases

CTD5134.
GeneCardsGC06M170884.
HGNCHGNC:8762. PDCD2.
HPAHPA026713.
MIM600866. gene.
neXtProtNX_Q16342.
PharmGKBPA33112.
GenAtlasSearch...

Phylogenomic databases

eggNOGNOG238796.
HOGENOMHOG000237274.
HOVERGENHBG053535.
InParanoidQ16342.
KOK14801.
OMARILEFQV.
OrthoDBEOG722J96.
PhylomeDBQ16342.
TreeFamTF313722.

Gene expression databases

ArrayExpressQ16342.
BgeeQ16342.
CleanExHS_PDCD2.
GenevestigatorQ16342.

Family and domain databases

InterProIPR007320. PDCD2_C.
IPR002893. Znf_MYND.
[Graphical view]
PfamPF04194. PDCD2_C. 1 hit.
PF01753. zf-MYND. 1 hit.
[Graphical view]
PROSITEPS01360. ZF_MYND_1. 1 hit.
PS50865. ZF_MYND_2. 1 hit.
[Graphical view]
ProtoNetSearch...

Other

GeneWikiPDCD2.
GenomeRNAi5134.
NextBio19796.
PROQ16342.
SOURCESearch...

Entry information

Entry namePDCD2_HUMAN
AccessionPrimary (citable) accession number: Q16342
Secondary accession number(s): E9PCU7 expand/collapse secondary AC list , F5GYS7, Q58HM9, Q58HN0, Q9UH12
Entry history
Integrated into UniProtKB/Swiss-Prot: December 1, 2000
Last sequence update: February 1, 2003
Last modified: July 9, 2014
This is version 131 of the entry and version 2 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program
DisclaimerAny medical or genetic information present in this entry is provided for research, educational and informational purposes only. It is not in any way intended to be used as a substitute for professional medical advice, diagnosis, treatment or care.

Relevant documents

SIMILARITY comments

Index of protein domains and families

MIM cross-references

Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot

Human chromosome 6

Human chromosome 6: entries, gene names and cross-references to MIM