DCP2 decapping mRNA 2 [Homo sapiens (human)] - Gene

Summary

Official Symbol: DCP2provided by HGNC
Official Full Name: decapping mRNA 2provided by HGNC
Primary source: HGNC:HGNC:24452
See related: Ensembl:ENSG00000172795 MIM:609844; AllianceGenome:HGNC:24452
Gene type: protein coding
RefSeq status: REVIEWED
Organism: Homo sapiens
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as: NUDT20
Summary: The protein encoded by this gene is a key component of an mRNA-decapping complex required for degradation of mRNAs, both in normal mRNA turnover, and in nonsense-mediated mRNA decay (NMD). It removes the 7-methyl guanine cap structure from mRNA, prior to its degradation from the 5' end. Alternatively spliced transcript variants encoding different isoforms have been noted for this gene.[provided by RefSeq, Jun 2011]
Expression: Ubiquitous expression in lymph node (RPKM 7.7), placenta (RPKM 6.8) and 24 other tissues See more
Orthologs: mouse all
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Genomic context

Location:: 5q22.2

Exon count:: 12

Annotation release	Status	Assembly	Chr	Location
RS_2023_10	current	GRCh38.p14 (GCF_000001405.40)	5	NC_000005.10 (112976798..113022195)
RS_2023_10	current	T2T-CHM13v2.0 (GCF_009914755.1)	5	NC_060929.1 (113487331..113532745)
105.20220307	previous assembly	GRCh37.p13 (GCF_000001405.25)	5	NC_000005.9 (112312495..112357892)

Chromosome 5 - NC_000005.10 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: HPA RNA-seq normal tissues
Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
BioProject: PRJEB4337
Publication: PMID 24309898
Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

MOV10 recruits DCP2 to decap human LINE-1 RNA by forming large cytoplasmic granules with phase separation properties.
Title: MOV10 recruits DCP2 to decap human LINE-1 RNA by forming large cytoplasmic granules with phase separation properties.
Intrinsically disordered regions of tristetraprolin and DCP2 directly interact to mediate decay of ARE-mRNA.
Title: Intrinsically disordered regions of tristetraprolin and DCP2 directly interact to mediate decay of ARE-mRNA.
Human MARF1 is an endoribonuclease that interacts with the DCP1:DCP2 decapping complex and degrades target mRNAs.
Title: Human MARF1 is an endoribonuclease that interacts with the DCP1:2 decapping complex and degrades target mRNAs.
Human Dcp2 levels and activity are controlled by a competition between decapping complex assembly and Dcp2 degradation.
Title: Competition between Decapping Complex Formation and Ubiquitin-Mediated Proteasomal Degradation Controls Human Dcp2 Decapping Activity.
The data indicates that DCP2 activation by DCP1 occurs preferentially on the EDC4 scaffold, which may serve to couple DCP2 activation by DCP1 with 5'-to-3' mRNA degradation by XRN1 in human cells.
Title: The activation of the decapping enzyme DCP2 by DCP1 occurs on the EDC4 scaffold and involves a conserved loop in DCP1.
Data show that Y14 interacts directly with the decapping factor Dcp2 and the 5' cap structure of mRNAs via different but overlapping domains.
Title: The RNA-binding protein Y14 inhibits mRNA decapping and modulates processing body formation.
PNRC2 acts in synergy with Dcp1a to stimulate the decapping activity of Dcp2 by bridging the interaction between Dcp1a and Dcp2.
Title: Structural basis of the PNRC2-mediated link between mrna surveillance and decapping.
Like Dcp2, Nudt16 also regulates the stability of a subset of mRNAs including a member of the motin family of proteins involved in angiogenesis.
Title: Multiple mRNA decapping enzymes in mammalian cells.
These data support the novel notion of the association between Ro52 with hDCP2 protein in cytoplasmic p-bodies, playing a role in mRNA metabolism in response to cellular stimulation.
Title: SSA/Ro52 autoantigen interacts with Dcp2 to enhance its decapping activity.
hDcp2 can specifically bind to and can regulate the stability of a subset of mRNAs
Title: Transcript-specific decapping and regulated stability by the human Dcp2 decapping protein.

Submit: New GeneRIF Correction See all GeneRIFs (14)

Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

HIV-1 interactions

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Replication interactions

Interaction	Pubs
Knockdown of DCP2 decapping enzyme homolog (S. cerevisiae, DCP2) by siRNA inhibits the early stages of HIV-1 replication in 293T cells infected with VSV-G pseudotyped HIV-1	PubMed

Protein interactions

Protein	Gene	Interaction	Pubs
Pr55(Gag)	gag	The efficiency of incorporation of Mov10, A3G, and A3F into viral particles, which contains both HIV-1 Gag and genomic RNA, is much higher than that of the other P-body proteins AGO2, DCP1a, DCP2, and DDX6	PubMed
	gag	DCP2 is associated with HIV-1 Gag and ABCE1 by immunoprecipitation analysis	PubMed

Go to the HIV-1, Human Interaction Database

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

A004W46 (e-PCR)
- UniSTS:26116

G32974 (e-PCR)
- UniSTS:117551

D1S1361 (e-PCR)
- UniSTS:149557

G54131 (e-PCR)
- UniSTS:109368

D1S1423 (e-PCR)
- UniSTS:149619

RH78455 (e-PCR)
- UniSTS:67038

RH93998 (e-PCR)
- UniSTS:85995

A009Y12 (e-PCR)
- UniSTS:750

Gene Ontology Provided by GOA

Function	Evidence Code	Pubs
enables 5'-(N(7)-methylguanosine 5'-triphospho)-[mRNA] hydrolase activity	IDA Inferred from Direct Assay more info	PubMed
enables 5'-3' RNA exonuclease activity	IMP Inferred from Mutant Phenotype more info	PubMed
enables RNA exonuclease activity, producing 5'-phosphomonoesters	TAS Traceable Author Statement more info
enables manganese ion binding	IEA Inferred from Electronic Annotation more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables telomerase RNA binding	IC Inferred by Curator more info	PubMed

Process	Evidence Code	Pubs
involved_in deadenylation-dependent decapping of nuclear-transcribed mRNA	IBA Inferred from Biological aspect of Ancestor more info
involved_in histone mRNA catabolic process	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in mRNA catabolic process	IDA Inferred from Direct Assay more info	PubMed
involved_in negative regulation of telomere maintenance via telomerase	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay	TAS Traceable Author Statement more info
involved_in nuclear-transcribed mRNA catabolic process, nonsense-mediated decay	IEA Inferred from Electronic Annotation more info
involved_in regulation of mRNA stability	IDA Inferred from Direct Assay more info	PubMed
involved_in regulation of telomerase RNA localization to Cajal body	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
is_active_in P-body	IBA Inferred from Biological aspect of Ancestor more info
located_in P-body	IDA Inferred from Direct Assay more info	PubMed
part_of RISC complex	IDA Inferred from Direct Assay more info	PubMed
located_in cell junction	IDA Inferred from Direct Assay more info
is_active_in cytoplasm	IBA Inferred from Biological aspect of Ancestor more info
located_in cytoplasmic ribonucleoprotein granule	IDA Inferred from Direct Assay more info
located_in cytosol	TAS Traceable Author Statement more info
located_in nucleoplasm	IDA Inferred from Direct Assay more info

General protein information

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Preferred Names: m7GpppN-mRNA hydrolase

Names: DCP2 decapping enzyme homolog; hDpc; mRNA-decapping enzyme 2; nudix (nucleoside diphosphate linked moiety X)-type motif 20

NP_001229306.1

EC 3.6.1.62

NP_689837.2

EC 3.6.1.62

XP_047272821.1

EC 3.6.1.62

XP_047272822.1

EC 3.6.1.62

XP_047272823.1

EC 3.6.1.62

XP_054207882.1

EC 3.6.1.62

XP_054207883.1

EC 3.6.1.62

XP_054207884.1

EC 3.6.1.62

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

Genomic

NG_029929.2 RefSeqGene

Range

5089..50486

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_001242377.2 → NP_001229306.1 m7GpppN-mRNA hydrolase isoform 2

See identical proteins and their annotated locations for NP_001229306.1

Status: REVIEWED

Description

Transcript Variant: This variant (2) lacks an in-frame coding exon compared to variant 1. This results in a shorter isoform (2) missing an internal protein segment compared to isoform 1.

Source sequence(s)

AA837315, AC008536, AL135390, AY135173, AY146650, BC045596, BC064593, BX537716, BX648838, CF994730, DB146225

Consensus CDS

CCDS56377.1

UniProtKB/Swiss-Prot

Q8IU60

Related

ENSP00000425770.1, ENST00000515408.5

Conserved Domains (2) summary

cd03672
Location:97 → 246

Dcp2p; mRNA decapping enzyme 2 (Dcp2p), the catalytic subunit, and Dcp1p are the two components of the decapping enzyme complex. Decapping is a key step in both general and nonsense-mediated 5'->3' mRNA-decay pathways. Dcp2p contains an all-alpha helical ...

pfam05026
Location:12 → 93

DCP2; Dcp2, box A domain
NM_152624.6 → NP_689837.2 m7GpppN-mRNA hydrolase isoform 1

See identical proteins and their annotated locations for NP_689837.2

Status: REVIEWED

Description

Transcript Variant: This variant (1) represents the predominant transcript, and encodes the longer isoform (1).

Source sequence(s)

AA837315, AC008536, AK090564, AL135390, AY135173, AY146650, BC045596, BX537716, BX648838, CF994730, DB146225

Consensus CDS

CCDS34210.1

UniProtKB/Swiss-Prot

C9J778, Q6P2D4, Q7Z5W5, Q8IU60, Q8NBG5

Related

ENSP00000373715.2, ENST00000389063.3

Conserved Domains (2) summary

cd03672
Location:97 → 246

Dcp2p; mRNA decapping enzyme 2 (Dcp2p), the catalytic subunit, and Dcp1p are the two components of the decapping enzyme complex. Decapping is a key step in both general and nonsense-mediated 5'->3' mRNA-decay pathways. Dcp2p contains an all-alpha helical ...

pfam05026
Location:12 → 93

DCP2; Dcp2, box A domain

RNA

NR_038352.2 RNA Sequence

Status: REVIEWED

Description

Transcript Variant: This variant (3) lacks two consecutive exons compared to variant 1. It is represented as non-coding because the use of the 5'-most translational start codon (with a strong Kozak signal), as used in variant 1, renders this transcript a candidate for nonsense-mediated mRNA decay (NMD).

Source sequence(s)

AA837315, AC008536, AK090564, AL135390, AY135173, AY146650, BC045596, BX537716, BX648838, CF994730, DB146225