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GRIN2D glutamate ionotropic receptor NMDA type subunit 2D [ Homo sapiens (human) ]

Gene ID: 2906, updated on 30-Jun-2020

Summary

Official Symbol
GRIN2Dprovided by HGNC
Official Full Name
glutamate ionotropic receptor NMDA type subunit 2Dprovided by HGNC
Primary source
HGNC:HGNC:4588
See related
Ensembl:ENSG00000105464 MIM:602717
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
EB11; NR2D; EIEE46; GluN2D; NMDAR2D
Summary
N-methyl-D-aspartate (NMDA) receptors are a class of ionotropic glutamate receptors. NMDA channel has been shown to be involved in long-term potentiation, an activity-dependent increase in the efficiency of synaptic transmission thought to underlie certain kinds of memory and learning. NMDA receptor channels are heteromers composed of the key receptor subunit NMDAR1 (GRIN1) and 1 or more of the 4 NMDAR2 subunits: NMDAR2A (GRIN2A), NMDAR2B (GRIN2B), NMDAR2C (GRIN2C), and NMDAR2D (GRIN2D). [provided by RefSeq, Mar 2010]
Expression
Low expression observed in reference dataset See more
Orthologs

Genomic context

See GRIN2D in Genome Data Viewer
Location:
19q13.33
Exon count:
13
Annotation release Status Assembly Chr Location
109.20200522 current GRCh38.p13 (GCF_000001405.39) 19 NC_000019.10 (48394875..48444937)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 19 NC_000019.9 (48898132..48948188)

Chromosome 19 - NC_000019.10Genomic Context describing neighboring genes Neighboring gene KDEL endoplasmic reticulum protein retention receptor 1 Neighboring gene uncharacterized LOC107984140 Neighboring gene Sharpr-MPRA regulatory region 12315 Neighboring gene Sharpr-MPRA regulatory region 8588 Neighboring gene glutamate rich WD repeat containing 1 Neighboring gene potassium inwardly rectifying channel subfamily J member 14 Neighboring gene cytohesin 2

Genomic regions, transcripts, and products

Expression

  • 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

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

HIV-1 interactions

Protein interactions

Protein Gene Interaction Pubs
Envelope surface glycoprotein gp120 env HIV-1 gp120-induced dephosphorylation of KV2.1 is dependent on NMDA receptor-mediated activation of protein phosphatase 2B or calcineurin PubMed
env HIV-1 gp120 activates forward trafficking and surface clustering of NMDA receptors in membrane microdomains by a PKA-dependent phosphorylation of the NR1 C-terminal Ser897, followed by a PKC-dependent phosphorylation of Ser896 PubMed
env HIV-1 gp120-induced synapse loss requires sequential activation of CXCR4, IL-1beta receptor, and NMDA receptor PubMed
env HIV-1 clade B gp120 significantly downregulates NMDA receptor gene and protein expression and levels of glutamine compared to clade C gp120 PubMed
env HIV-1 gp120 activates NMDA receptor directly and phosphorylates JNK through a gp120-mediated apoptotic pathway in human neuroblastoma cells PubMed
env HIV-1 gp120-mediated human cell death involves the NMDA receptor complex; antagonists of the NMDA receptor reverse the gp120-mediated effects PubMed
env HIV-1 gp120 causes an activation of phospholipase A2, resulting in the increased release of arachidonic acid, which may sensitize the NMDA receptor PubMed
env HIV-1 gp120 binds to cells expressing epsilon1/zeta1 or epsilon2/zeta1 combined NMDA receptor subunits, but not to cells expressing a single epsilon1, epsilon2, or zeta1 NMDA receptor subunit PubMed
Tat tat The gene expression of GRIN2D is significantly upregulated in both clade B and clade C Tat treated SK-N-MC neuroblastoma cells PubMed
tat Ca(2+) influx through the NMDA receptor is necessary for HIV-1 Tat-induced synapse loss PubMed
tat HIV-1 Tat upregulates the expression of NMDARs for the apoptosis of retinal pigmen epithelium (RPE) cells. Silencing of NMDARs by siRNA abolishes Tat-induced RPE apoptosis PubMed
tat HIV-1 Tat-induced activation of spermine oxidase (SMO) activity involves NMDAR stimulation in human neuroblastoma PubMed
tat HIV-1 Tat and methamphetamine inhibit the normal conjunction of signaling between D1 and NMDA receptors, resulting in neural dysfunction and death PubMed
tat HIV-1 Tat interacts with NMDA receptors in primary neuronal-glial cultures and in hippocampal slice cultures PubMed
tat Tat treatment causes activation of neuronal nitric oxide synthase (nNOS) through association with NMDA receptors PubMed
tat HIV-1 Tat treatment induces the formation of complexes involving the low-density lipoprotein receptor-related protein (LRP), postsynaptic density protein-95 (PSD-95), and N-methyl-d-aspartic acid (NMDA) receptors at the neuron surface PubMed
tat HIV-1 Tat-induced NMDA receptor activation is clade dependent. The Cys 30-Cys 31 motif in Tat is critical for the NMDA receptor activation PubMed
tat HIV-1 Tat induces apoptosis of neurons and neurotoxicity through the activation of both NMDA and non-NMDA receptors PubMed

Go to the HIV-1, Human Interaction Database

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
NMDA glutamate receptor activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
NMDA glutamate receptor activity IDA
Inferred from Direct Assay
more info
PubMed 
NMDA glutamate receptor activity ISS
Inferred from Sequence or Structural Similarity
more info
 
NMDA glutamate receptor activity TAS
Traceable Author Statement
more info
PubMed 
glutamate-gated calcium ion channel activity IDA
Inferred from Direct Assay
more info
PubMed 
ionotropic glutamate receptor activity IDA
Inferred from Direct Assay
more info
PubMed 
ligand-gated ion channel activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
signaling receptor activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
Process Evidence Code Pubs
adult locomotory behavior IEA
Inferred from Electronic Annotation
more info
 
brain development NAS
Non-traceable Author Statement
more info
PubMed 
calcium ion transmembrane import into cytosol IDA
Inferred from Direct Assay
more info
PubMed 
calcium-mediated signaling IEA
Inferred from Electronic Annotation
more info
 
excitatory chemical synaptic transmission NAS
Non-traceable Author Statement
more info
PubMed 
excitatory postsynaptic potential IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
ionotropic glutamate receptor signaling pathway IEA
Inferred from Electronic Annotation
more info
 
long-term synaptic potentiation IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
regulation of sensory perception of pain IEA
Inferred from Electronic Annotation
more info
 
regulation of synaptic plasticity NAS
Non-traceable Author Statement
more info
PubMed 
startle response IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
NMDA selective glutamate receptor complex IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
NMDA selective glutamate receptor complex IDA
Inferred from Direct Assay
more info
PubMed 
NMDA selective glutamate receptor complex TAS
Traceable Author Statement
more info
PubMed 
integral component of plasma membrane IDA
Inferred from Direct Assay
more info
PubMed 
plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
plasma membrane TAS
Traceable Author Statement
more info
 
postsynaptic density membrane IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 

General protein information

Preferred Names
glutamate receptor ionotropic, NMDA 2D
Names
N-methyl D-aspartate receptor subtype 2D
N-methyl-d-aspartate receptor subunit 2D
estrogen receptor binding CpG island
glutamate [NMDA] receptor subunit epsilon-4
glutamate receptor, ionotropic, N-methyl D-aspartate 2D

NCBI Reference Sequences (RefSeq)

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

  1. NG_052829.1 RefSeqGene

    Range
    5001..55057
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_000836.4NP_000827.2  glutamate receptor ionotropic, NMDA 2D precursor

    See identical proteins and their annotated locations for NP_000827.2

    Status: REVIEWED

    Source sequence(s)
    AB209292, AC011527, AW139866, U77783
    Consensus CDS
    CCDS12719.1
    UniProtKB/Swiss-Prot
    O15399
    UniProtKB/TrEMBL
    Q59G17
    Related
    ENSP00000263269.2, ENST00000263269.3
    Conserved Domains (5) summary
    cd06378
    Location:49418
    PBP1_iGluR_NMDA_NR2; N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NR2 subunit of NMDA receptor family
    COG0834
    Location:466569
    HisJ; ABC-type amino acid transport/signal transduction system, periplasmic component/domain [Amino acid transport and metabolism, Signal transduction mechanisms]
    cd13718
    Location:430830
    PBP2_iGluR_NMDA_Nr2; The ligand-binding domain of the NR2 subunit of ionotropic NMDA (N-methyl-D-aspartate) glutamate receptors, a member of the type 2 periplasmic binding fold protein superfamily
    pfam00060
    Location:584856
    Lig_chan; Ligand-gated ion channel
    pfam10565
    Location:867896
    NMDAR2_C; N-methyl D-aspartate receptor 2B3 C-terminus

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000019.10 Reference GRCh38.p13 Primary Assembly

    Range
    48394875..48444937
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011526872.1XP_011525174.1  glutamate receptor ionotropic, NMDA 2D isoform X1

    See identical proteins and their annotated locations for XP_011525174.1

    UniProtKB/Swiss-Prot
    O15399
    Conserved Domains (5) summary
    cd06378
    Location:49418
    PBP1_iGluR_NMDA_NR2; N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NR2 subunit of NMDA receptor family
    COG0834
    Location:466569
    HisJ; ABC-type amino acid transport/signal transduction system, periplasmic component/domain [Amino acid transport and metabolism, Signal transduction mechanisms]
    cd13718
    Location:430830
    PBP2_iGluR_NMDA_Nr2; The ligand-binding domain of the NR2 subunit of ionotropic NMDA (N-methyl-D-aspartate) glutamate receptors, a member of the type 2 periplasmic binding fold protein superfamily
    pfam00060
    Location:584856
    Lig_chan; Ligand-gated ion channel
    pfam10565
    Location:867896
    NMDAR2_C; N-methyl D-aspartate receptor 2B3 C-terminus
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