Gene
Entrez ID Entrez Gene ID - the GENE ID in NCBI Gene database.
2902
Gene name Gene Name - the full gene name approved by the HGNC.
Glutamate ionotropic receptor NMDA type subunit 1
Gene symbol Gene Symbol - the official gene symbol approved by the HGNC.
GRIN1
Synonyms (NCBI Gene) Gene synonyms aliases
DEE101, GluN1, MRD8, NDHMSD, NDHMSR, NMD-R1, NMDA1, NMDAR1, NR1, hNR1
Chromosome Chromosome number
9
Chromosome location Chromosomal Location - indicates the cytogenetic location of the gene or region on the chromosome.
9q34.3
Summary Summary of gene provided in NCBI Entrez Gene.
The protein encoded by this gene is a critical subunit of N-methyl-D-aspartate receptors, members of the glutamate receptor channel superfamily which are heteromeric protein complexes with multiple subunits arranged to form a ligand-gated ion channel. The
SNPs SNP information provided by dbSNP.
SNP ID Visualize variation Clinical significance Consequence
rs146086141 C>T Likely-benign, conflicting-interpretations-of-pathogenicity Synonymous variant, coding sequence variant
rs200225692 C>G,T Conflicting-interpretations-of-pathogenicity, uncertain-significance Missense variant, coding sequence variant
rs200777850 C>A,T Pathogenic Missense variant, coding sequence variant, synonymous variant
rs387906635 G>A Pathogenic Missense variant, coding sequence variant
rs771610568 C>G,T Pathogenic Coding sequence variant, synonymous variant, missense variant
miRNA miRNA information provided by mirtarbase database.
miRTarBase ID miRNA Experiments Reference
MIRT1034331 hsa-miR-151-5p CLIP-seq
MIRT1034332 hsa-miR-151b CLIP-seq
MIRT1034333 hsa-miR-184 CLIP-seq
MIRT1034334 hsa-miR-2467-3p CLIP-seq
MIRT1034335 hsa-miR-3184 CLIP-seq
Transcription factors
Transcription factor Regulation Reference
NFKB1 Unknown 15950782
RELA Unknown 15950782
REST Repression 10640675
REST Unknown 12887696;15950782
SP1 Unknown 15950782
Gene ontology (GO) Gene ontology information of associated ontologies with gene provided by GO database.
GO ID Ontology Definition Evidence Reference
GO:0001540 Function Amyloid-beta binding ISS
GO:0004972 Function NMDA glutamate receptor activity IBA
GO:0004972 Function NMDA glutamate receptor activity IDA 7679115, 7685113
GO:0004972 Function NMDA glutamate receptor activity IDA 7681588, 7685113, 9489750, 24272827, 26875626, 26919761, 27164704, 28095420, 28105280, 28126851, 28228639, 38538865
GO:0004972 Function NMDA glutamate receptor activity IEA
Other IDs Other ids provides unique ids of gene in databases such as OMIM, HGNC, ENSEMBLE.
MIM HGNC e!Ensembl
138249 4584 ENSG00000176884
Protein
UniProt ID Q05586
Protein name Glutamate receptor ionotropic, NMDA 1 (GluN1) (Glutamate [NMDA] receptor subunit zeta-1) (N-methyl-D-aspartate receptor subunit NR1) (NMD-R1) (hNR1)
Protein function Component of N-methyl-D-aspartate (NMDA) receptors (NMDARs) that function as heterotetrameric, ligand-gated cation channels with high calcium permeability and voltage-dependent block by Mg(2+) (PubMed:21376300, PubMed:26875626, PubMed:26919761,
PDB 2HQW , 2NR1 , 3BYA , 5H8F , 5H8H , 5H8N , 5H8Q , 5I2K , 5I2N , 5KCJ , 5KDT , 5TP9 , 5TPA , 6IRA , 6IRF , 6IRG , 6IRH , 7EOQ , 7EOR , 7EOS , 7EOT , 7EOU , 7EU7 , 7EU8 , 7YFF , 7YFL , 7YFM , 7YFO , 7YFR , 8E92 , 8E93 , 8E94 , 8E96 , 8E97 , 8E98 , 8E99 , 8JIZ , 8JJ0 , 8JJ1 , 8JJ2 , 8UUE , 8VUL , 8VUN , 8VUQ , 8VUR , 8VUS , 8VUT , 8VUU , 8VUV , 8Y1V , 9D37
Family and domains

Pfam

Accession ID Position in sequence Description Type
PF01094 ANF_receptor 39 360 Receptor family ligand binding region Family
PF10613 Lig_chan-Glu_bd 442 546 Ligated ion channel L-glutamate- and glycine-binding site Domain
PF00060 Lig_chan 559 824 Ligand-gated ion channel Family
PF10562 CaM_bdg_C0 835 863 Calmodulin-binding domain C0 of NMDA receptor NR1 subunit Domain
Sequence
MSTMRLLTLALLFSCSVARAACDPKIVNIGAVLSTRKHEQMFREAVNQANKRHGSWKIQL
NATSVTHKPNAIQMALSVCEDLISSQVYAILVSHPPTPNDHFTPTPVSYTAGFYRIPVLG
LTTRMSIYSDKSIHLSFLRTVPPYSHQSSVWFEMMRVYSWNHIILLVSDDHEGRAAQKRL
ETLLEERESKAEKVLQFDPGTKNVTALLMEAKELEARVIILSASEDDAATVYRAAAMLNM
TGSGYVWLVGEREISGNALRYAPDGILGLQLINGKNESAHISDAVGVVAQAVHELLEKEN
ITDPPRGCVGNTNIWKTGPLFKRVLMSSKYADGVTGRVEFNEDGDRKFANYSIMNLQNRK

LVQVGIYNGTHVIPNDRKIIWPGGETEKPRGYQMSTRLKIVTIHQEPFVYVKPTLSDGTC
KEEFTVNGDPVKKVICTGPNDTSPGSPRHTVPQCCYGFCIDLLIKLARTMNFTYEVHLVA
DGKFGTQERVNNSNKKEWNGMMGELLSGQADMIVAPLTINNERAQYIEFSKPFKYQGLTI
LVKKEI
PRSTLDSFMQPFQSTLWLLVGLSVHVVAVMLYLLDRFSPFGRFKVNSEEEEEDA
LTLSSAMWFSWGVLLNSGIGEGAPRSFSARILGMVWAGFAMIIVASYTANLAAFLVLDRP
EERITGINDPRLRNPSDKFIYATVKQSSVDIYFRRQVELSTMYRHMEKHNYESAAEAIQA
VRDNKLHAFIWDSAVLEFEASQKCDLVTTGELFFRSGFGIGMRKDSPWKQNVSLSILKSH
ENGFMEDLDKTWVRYQECDSRSNAPATLTFENMAGVFMLVAGGI
VAGIFLIFIEIAYKRH
KDARRKQMQLAFAAVNVWRKNLQ
DRKSGRAEPDPKKKATFRAITSTLASSFKRRRSSKDT
STGGGRGALQNQKDTVLPRRAIEREEGQLQLCSRHRES
Sequence length 938
Interactions View interactions
Pathways Pathway information has different metabolic/signaling pathways associated with genes.
  KEGG   Reactome
  Ras signaling pathway
Rap1 signaling pathway
Calcium signaling pathway
cAMP signaling pathway
Neuroactive ligand-receptor interaction
Circadian entrainment
Long-term potentiation
Glutamatergic synapse
Alzheimer disease
Amyotrophic lateral sclerosis
Huntington disease
Spinocerebellar ataxia
Prion disease
Pathways of neurodegeneration - multiple diseases
Cocaine addiction
Amphetamine addiction
Nicotine addiction
Alcoholism
  EPHB-mediated forward signaling
Unblocking of NMDA receptors, glutamate binding and activation
RAF/MAP kinase cascade
Synaptic adhesion-like molecules
Assembly and cell surface presentation of NMDA receptors
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Associated diseases Disease associations categorized as Causal (pathogenic variants), Unknown (uncertain genetic evidence), or Text Mining (literature-based associations)
Causal Diseases caused by PATHOGENIC or LIKELY PATHOGENIC variants from ClinVar only
Disease merge term Disease name dbSNP ID References
Developmental And Epileptic Encephalopathy Developmental and epileptic encephalopathy, 1, Developmental and epileptic encephalopathy 101 rs1554770243, rs1554770057 N/A
Mental retardation intellectual disability, Intellectual disability, autosomal dominant 8 rs1554770667, rs1588732344, rs1064797355, rs781053477, rs1554770589, rs1212517874, rs1554770243, rs387906635, rs1554770628, rs1554770064, rs1554770054, rs1554770444, rs797044925, rs771610568, rs1554770262
View all (11 more)
N/A
seizure Seizure rs797045047 N/A
Unknown Includes: (1) ClinVar NON-pathogenic variants (Uncertain, Benign, Conflicting, VUS), (2) GenCC associations, (3) GWAS associations, (4) CBGDA evidence-based associations. NOTE: Diseases with pathogenic evidence are excluded to avoid conflicts.
Disease merge term Disease name Evidence References Source
Hemimegalencephaly hemimegalencephaly N/A N/A ClinVar
Neurodevelopmental Disorder with or without Hyperkinetic Movements and Seizures neurodevelopmental disorder with or without hyperkinetic movements and seizures, autosomal recessive N/A N/A ClinVar
Neurodevelopmental Disorders complex neurodevelopmental disorder N/A N/A GenCC
Non-Syndromic Intellectual Disability autosomal dominant non-syndromic intellectual disability N/A N/A GenCC
Associations from Text Mining Disease associations identified through Pubtator
Disease Name Relationship Type References
Alzheimer Disease Associate 11432984, 15030408, 15287897
Anti N Methyl D Aspartate Receptor Encephalitis Associate 22875940, 29945600, 32771066
Autism Spectrum Disorder Associate 34726335
Autistic Disorder Associate 28051072
Autoimmune Diseases Associate 36323361
Basal Ganglia Diseases Associate 35393335
Bipolar Disorder Inhibit 17113057, 19488045
Bipolar Disorder Associate 33875800
Brain Diseases Associate 25864721, 28051072, 29190809
Breast Neoplasms Associate 32235849, 33962648