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Center for Computational Systems Medicine
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Protein Summary

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AS Summary

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Protein Functional Features

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Gene Isoform Structures and Expression Levels

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Protein Structures

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pLDDT Score Distribution

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Ramachandran Plot of Protein Structures

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Potential Active Site Information

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Protein Structure and Feature Comparision

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Protein-Protein Interaction

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Related Drugs

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Related Diseases

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Clinically Important Variants

Protein:GRIA2

Protein Summary

check button Gene summary
Gene name: GRIA2
ASpdb.0 ID: 2891
Gene
Gene symbol

GRIA2

Gene ID

2891

Gene nameglutamate ionotropic receptor AMPA type subunit 2
SynonymsGLUR2|GLURB|GluA2|GluR-K2|HBGR2|NEDLIB|gluR-2|gluR-B
Cytomap

4q32.1

Type of geneprotein-coding
Descriptionglutamate receptor 2AMPA receptor subunit GluA2AMPA-selective glutamate receptor 2glutamate receptor, ionotropic, AMPA 2
Modification date20240403
UniProtAcc

P42262


check button Gene ontology of this gene with evidence of Inferred from Direct Assay (IDA) from Entrez
PartnerGeneGO IDGO termPubMed ID
GeneGRIA2

GO:0004970

glutamate-gated receptor activity

20614889

GeneGRIA2

GO:0035235

ionotropic glutamate receptor signaling pathway

20614889



AS Summary

check button Information of the canonical protein with experimentally identified structure from PDB (2023).
UniProt AccFile namePDB IDMethodResolutionChainStartEnd
P42262-1P42262-1_2wjw_A.pdb2WJWX-ray1.8A25398

check button ASpdb's canonical and alternatively spliced isoform information.
accession_idgene_namecanonical_idalternative_idcanonical_lengthalternative_lengthcanonical_startcanonical_endtypeoriginalSEQvariationSEQalternative_startalternative_end
P42262GRIA2P42262-1P42262-2883883765800SubstitutionNAVNLAVLKLNEQGLLDKLKNKWWYDKGECGSGGGDTPVNLAVLKLSEQGVLDKLKNKWWYDKGECGAKDSG765800
P42262GRIA2P42262-1P42262-3883901848883SubstitutionVAKNAQNINPSSSQNSQNFATYKEGYNVYGIESVKIMTLNDAMRNKARLSITGSTGENGRVMTPEFPKAVHAVPYVSPGMGMNVSVTDLS848901
P42262GRIA2P42262-1P42262-4883836147Deletionnonenone00
P42262GRIA2P42262-1P42262-4883836765800SubstitutionNAVNLAVLKLNEQGLLDKLKNKWWYDKGECGSGGGDTPVNLAVLKLSEQGVLDKLKNKWWYDKGECGAKDSG718753

check buttonMultiple sequence alignment of our canonical and alternatively spliced GRIA2

check button Matched gene isoform IDs with Ensembl and RefSeq of our canonical and alternative spliced genes of GRIA2
UniProt-idENSGENSTENSP
P42262-1ENSG00000120251.22ENST00000264426.14ENSP00000264426.9
P42262-2ENSG00000120251.22ENST00000296526.12ENSP00000296526.7
P42262-3ENSG00000120251.22ENST00000645636.1ENSP00000495569.1
P42262-4ENSG00000120251.22ENST00000393815.6ENSP00000377403.2
P42262-4ENSG00000120251.22ENST00000507898.5ENSP00000426845.1
P42262-4ENSG00000120251.22ENST00000703765.1ENSP00000515472.1

UniProt-idNM IDNP ID
P42262-1NM_001083619.1NP_001077088.1
P42262-2NM_000826.3NP_000817.2
P42262-4NM_001083620.1NP_001077089.1

check buttonAmino acid sequences of our canonical and alternatively spliced GRIA2
accession_idProtein sequence
P42262-1MQKIMHISVLLSPVLWGLIFGVSSNSIQIGGLFPRGADQEYSAFRVGMVQFSTSEFRLTPHIDNLEVANSFAVTNAFCSQFSRGVYAIFG
FYDKKSVNTITSFCGTLHVSFITPSFPTDGTHPFVIQMRPDLKGALLSLIEYYQWDKFAYLYDSDRGLSTLQAVLDSAAEKKWQVTAINV
GNINNDKKDEMYRSLFQDLELKKERRVILDCERDKVNDIVDQVITIGKHVKGYHYIIANLGFTDGDLLKIQFGGANVSGFQIVDYDDSLV
SKFIERWSTLEEKEYPGAHTTTIKYTSALTYDAVQVMTEAFRNLRKQRIEISRRGNAGDCLANPAVPWGQGVEIERALKQVQVEGLSGNI
KFDQNGKRINYTINIMELKTNGPRKIGYWSEVDKMVVTLTELPSGNDTSGLENKTVVVTTILESPYVMMKKNHEMLEGNERYEGYCVDLA
AEIAKHCGFKYKLTIVGDGKYGARDADTKIWNGMVGELVYGKADIAIAPLTITLVREEVIDFSKPFMSLGISIMIKKPQKSKPGVFSFLD
PLAYEIWMCIVFAYIGVSVVLFLVSRFSPYEWHTEEFEDGRETQSSESTNEFGIFNSLWFSLGAFMQQGCDISPRSLSGRIVGGVWWFFT
LIIISSYTANLAAFLTVERMVSPIESAEDLSKQTEIAYGTLDSGSTKEFFRRSKIAVFDKMWTYMRSAEPSVFVRTTAEGVARVRKSKGK
YAYLLESTMNEYIEQRKPCDTMKVGGNLDSKGYGIATPKGSSLRNAVNLAVLKLNEQGLLDKLKNKWWYDKGECGSGGGDSKEKTSALSL
P42262-2MQKIMHISVLLSPVLWGLIFGVSSNSIQIGGLFPRGADQEYSAFRVGMVQFSTSEFRLTPHIDNLEVANSFAVTNAFCSQFSRGVYAIFG
FYDKKSVNTITSFCGTLHVSFITPSFPTDGTHPFVIQMRPDLKGALLSLIEYYQWDKFAYLYDSDRGLSTLQAVLDSAAEKKWQVTAINV
GNINNDKKDEMYRSLFQDLELKKERRVILDCERDKVNDIVDQVITIGKHVKGYHYIIANLGFTDGDLLKIQFGGANVSGFQIVDYDDSLV
SKFIERWSTLEEKEYPGAHTTTIKYTSALTYDAVQVMTEAFRNLRKQRIEISRRGNAGDCLANPAVPWGQGVEIERALKQVQVEGLSGNI
KFDQNGKRINYTINIMELKTNGPRKIGYWSEVDKMVVTLTELPSGNDTSGLENKTVVVTTILESPYVMMKKNHEMLEGNERYEGYCVDLA
AEIAKHCGFKYKLTIVGDGKYGARDADTKIWNGMVGELVYGKADIAIAPLTITLVREEVIDFSKPFMSLGISIMIKKPQKSKPGVFSFLD
PLAYEIWMCIVFAYIGVSVVLFLVSRFSPYEWHTEEFEDGRETQSSESTNEFGIFNSLWFSLGAFMQQGCDISPRSLSGRIVGGVWWFFT
LIIISSYTANLAAFLTVERMVSPIESAEDLSKQTEIAYGTLDSGSTKEFFRRSKIAVFDKMWTYMRSAEPSVFVRTTAEGVARVRKSKGK
YAYLLESTMNEYIEQRKPCDTMKVGGNLDSKGYGIATPKGSSLRTPVNLAVLKLSEQGVLDKLKNKWWYDKGECGAKDSGSKEKTSALSL
P42262-3MQKIMHISVLLSPVLWGLIFGVSSNSIQIGGLFPRGADQEYSAFRVGMVQFSTSEFRLTPHIDNLEVANSFAVTNAFCSQFSRGVYAIFG
FYDKKSVNTITSFCGTLHVSFITPSFPTDGTHPFVIQMRPDLKGALLSLIEYYQWDKFAYLYDSDRGLSTLQAVLDSAAEKKWQVTAINV
GNINNDKKDEMYRSLFQDLELKKERRVILDCERDKVNDIVDQVITIGKHVKGYHYIIANLGFTDGDLLKIQFGGANVSGFQIVDYDDSLV
SKFIERWSTLEEKEYPGAHTTTIKYTSALTYDAVQVMTEAFRNLRKQRIEISRRGNAGDCLANPAVPWGQGVEIERALKQVQVEGLSGNI
KFDQNGKRINYTINIMELKTNGPRKIGYWSEVDKMVVTLTELPSGNDTSGLENKTVVVTTILESPYVMMKKNHEMLEGNERYEGYCVDLA
AEIAKHCGFKYKLTIVGDGKYGARDADTKIWNGMVGELVYGKADIAIAPLTITLVREEVIDFSKPFMSLGISIMIKKPQKSKPGVFSFLD
PLAYEIWMCIVFAYIGVSVVLFLVSRFSPYEWHTEEFEDGRETQSSESTNEFGIFNSLWFSLGAFMQQGCDISPRSLSGRIVGGVWWFFT
LIIISSYTANLAAFLTVERMVSPIESAEDLSKQTEIAYGTLDSGSTKEFFRRSKIAVFDKMWTYMRSAEPSVFVRTTAEGVARVRKSKGK
YAYLLESTMNEYIEQRKPCDTMKVGGNLDSKGYGIATPKGSSLRNAVNLAVLKLNEQGLLDKLKNKWWYDKGECGSGGGDSKEKTSALSL
SNVAGVFYILVGGLGLAMLVALIEFCYKSRAEAKRMKMTLNDAMRNKARLSITGSTGENGRVMTPEFPKAVHAVPYVSPGMGMNVSVTDL
P42262-4MVQFSTSEFRLTPHIDNLEVANSFAVTNAFCSQFSRGVYAIFGFYDKKSVNTITSFCGTLHVSFITPSFPTDGTHPFVIQMRPDLKGALL
SLIEYYQWDKFAYLYDSDRGLSTLQAVLDSAAEKKWQVTAINVGNINNDKKDEMYRSLFQDLELKKERRVILDCERDKVNDIVDQVITIG
KHVKGYHYIIANLGFTDGDLLKIQFGGANVSGFQIVDYDDSLVSKFIERWSTLEEKEYPGAHTTTIKYTSALTYDAVQVMTEAFRNLRKQ
RIEISRRGNAGDCLANPAVPWGQGVEIERALKQVQVEGLSGNIKFDQNGKRINYTINIMELKTNGPRKIGYWSEVDKMVVTLTELPSGND
TSGLENKTVVVTTILESPYVMMKKNHEMLEGNERYEGYCVDLAAEIAKHCGFKYKLTIVGDGKYGARDADTKIWNGMVGELVYGKADIAI
APLTITLVREEVIDFSKPFMSLGISIMIKKPQKSKPGVFSFLDPLAYEIWMCIVFAYIGVSVVLFLVSRFSPYEWHTEEFEDGRETQSSE
STNEFGIFNSLWFSLGAFMQQGCDISPRSLSGRIVGGVWWFFTLIIISSYTANLAAFLTVERMVSPIESAEDLSKQTEIAYGTLDSGSTK
EFFRRSKIAVFDKMWTYMRSAEPSVFVRTTAEGVARVRKSKGKYAYLLESTMNEYIEQRKPCDTMKVGGNLDSKGYGIATPKGSSLRTPV
NLAVLKLSEQGVLDKLKNKWWYDKGECGAKDSGSKEKTSALSLSNVAGVFYILVGGLGLAMLVALIEFCYKSRAEAKRMKVAKNAQNINP

Protein Functional Features

check buttonMain function of this protein. (from UniProt)
GRIA2 (go to UniProt):P42262

check buttonRetention analysis result of protein across 39 protein features of UniProt such as six molecule processing features, 13 region features, four site features, six amino acid modification features, two natural variation features, five experimental info features, and 3 secondary structure features. Here, because of limited space for viewing, we only show the protein feature retention information belong to the 13 regional features. All retention annotation result can be downloaded at

download page

* Minus value of BPloci means that the break pointn is located before the CDS.
- Retained protein feature among the 13 regional features.
Accession_idSubsectionStartEndFuncitonal featureSplicing information
P42262Topological domain25543Note=Extracellular;Ontology_term=ECO:0000250;evidence=ECO:0000250Type=Deletion;Start=1;End=47
P42262Topological domain638812Note=Extracellular;Ontology_term=ECO:0000250;evidence=ECO:0000250Type=Substitution;Start=765;End=800
P42262Topological domain638812Note=Extracellular;Ontology_term=ECO:0000250;evidence=ECO:0000250Type=Substitution;Start=765;End=800
P42262Topological domain834883Note=Cytoplasmic;Ontology_term=ECO:0000250;evidence=ECO:0000250Type=Substitution;Start=848;End=883
P42262Region867877Note=Required for interaction with IQSEC1;Ontology_term=ECO:0000250;evidence=ECO:0000250|UniProtKB:P19491Type=Substitution;Start=848;End=883


Gene Isoform Structures and Expression Levels for GRIA2

check buttonGene structures of our canonical and alternative spliced genes of GRIA2
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.
gene isoform structure of GRIA2

check button Expression levels of gene isoforms across GTEx.
gtex expression

check button Expression levels of gene isoforms across TCGA.
tcga expression


Protein Structures

check button PDB and CIF files of the predicted protein structures
* Here we show the 3D structure of the proteins using Mol*. AlphaFold produces a per-residue confidence score (pLDDT) between 0 and 100. Model confidence is shown from the pLDDT values per residue. pLDDT corresponds to the model’s prediction of its score on the local Distance Difference Test. It is a measure of local accuracy (from AlphfaFold website). To color code individual residues, we transformed individual PDB files into CIF format.
3D view using mol* of P42262-1
3D view using mol* of P42262-2
3D view using mol* of P42262-3
3D view using mol* of P42262-4


pLDDT Score Distribution

check button pLDDT score distribution of the predicted protein structures from AlphaFold2
* AlphaFold produces a per-residue confidence score (pLDDT) between 0 and 100.
pLDDT distribution across the protein length of P42262-1
all structure
pLDDT distribution across the protein length of P42262-2
all structure
pLDDT distribution across the protein length of P42262-3
all structure
pLDDT distribution across the protein length of P42262-4
all structure


Ramachandran Plot of Protein Structures


check button Ramachandran plot of the torsional angles - phi (φ)and psi (ψ) - of the residues (amino acids) contained in this protein peptide.
Ramachandran plot of P42262-1
all structure
Ramachandran plot of P42262-3
all structure

Potential Active Site Information


check button The potential binding sites of these proteins were identified using SiteMap, a module of the Schrodinger suite.
UniProt-idSite scoreSizeD scoreVolumeExposureEnclosureContactPhobicPhilicBalanceDon/AccResidues
P42262-11.0671201.125307.6710.5280.7110.9181.2150.741.6420.705470,471,472,473,474,476,481,482,502,503,504,505,50
6,508,673,674,675,677,678,679,681,682,751
P42262-21.117830.831141.3160.2840.971.2960.1571.8640.0840.418423,426,471,499,500,501,506,670,671,674,675,676,70
6,707,708,723,724,725,726,729,753
P42262-31.0661030.982335.7970.5020.7970.9580.5271.3390.3940.52734,37,40,67,91,92,93,115,116,129,155,156,211,212,2
13,214,215,239,240,241,244,294,295,296
P42262-41.0611251.098317.2750.470.7440.9711.190.8831.3470.574423,424,425,426,427,428,429,432,434,435,456,457,45
8,459,625,626,627,628,630,631,632,634,635,704

Protein Structure and Feature Comparision


check button Protein Structure Comparision Using Template Modeling Scores (TM-score).
all structure

check button Protein Structure Comparision Visualization with mol*. between Canonical predicted structure (AF2)(orange) vs Canonical validated structure (PDB)(green)
3D view using mol* of P42262-1_P42262-1_2wjw_A.pdb

check button Protein Structure Comparision Visualization with mol*. between Canonical validated structure (PDB)(orange) vs Alternative predicted structure (AF2)(green)
3D view using mol* of P42262-1_2wjw_A_P42262-2.pdb
3D view using mol* of P42262-1_2wjw_A_P42262-3.pdb
3D view using mol* of P42262-1_2wjw_A_P42262-4.pdb

check button Protein Structure Comparision Visualization with mol*. between Canonical predicted structure (AF2)(orange) vs Alternative predicted structure (AF2)(green)
3D view using mol* of P42262-1_P42262-2.pdb
3D view using mol* of P42262-1_P42262-3.pdb
3D view using mol* of P42262-1_P42262-4.pdb

check button Protein Feature Comparison of the protein sequendary structures among the protiens.
./stats/secondary_structure/figure/P42262-1_vs_P42262-2.png
all structure<
./stats/secondary_structure/figure/P42262-1_vs_P42262-3.png
all structure<
./stats/secondary_structure/figure/P42262-1_vs_P42262-4.png
all structure<

check button Protein Feature Comparison of the relative accessible surface area (ASA) among the protiens.
./stats/relative_asa/P42262-1_vs_P42262-2.png
all structure<
./stats/relative_asa/P42262-1_vs_P42262-3.png
all structure<
./stats/relative_asa/P42262-1_vs_P42262-4.png
all structure<


Protein-Protein Interaction


check button Interactors from UniProt.
Accession_idSubsectionStartEndFuncitonal featureSplicing information
P42262Region867877Note=Required for interaction with IQSEC1;Ontology_term=ECO:0000250;evidence=ECO:0000250|UniProtKB:P19491Type=Substitution;Start=848;End=883


check button Interactors from STRING.
Gene nameInteractors


Related Drugs to GRIA2


check button Drugs targeting this gene/protein.
(DrugBank)
UniProt accessionGene nameDrugBank IDDrug nameDrug groupActions
P42262GRIA2DB08304(3R)-3-cyclopentyl-7-[(4-methylpiperazin-1-yl)sulfonyl]-3,4-dihydro-2H-1,2-benzothiazine 1,1-dioxideexperimental
P42262GRIA2DB08303(3S)-3-cyclopentyl-6-methyl-7-[(4-methylpiperazin-1-yl)sulfonyl]-3,4-dihydro-2H-1,2,4-benzothiadiazine 1,1-dioxideexperimental
P42262GRIA2DB04599Aniracetamexperimental
P42262GRIA2DB02999Quisqualic acidexperimental
P42262GRIA2DB01346Quinidine barbiturateapprovedantagonist
P42262GRIA2DB04798THIO-ATPAexperimental
P42262GRIA2DB00418Secobarbitalapproved, vet_approvedantagonist
P42262GRIA2DB04982Talampanelinvestigational
P42262GRIA2DB023472-Amino-3-(5-Tert-Butyl-3-(Phosphonomethoxy)-4-Isoxazolyl)Propionic Acidexperimental
P42262GRIA2DB00849Methylphenobarbitalapprovedantagonist
P42262GRIA2DB05047CX-717illicit, investigational
P42262GRIA2DB02057(S)-AMPAexperimental
P42262GRIA2DB13146Fluciclovine (18F)approvedinhibitor
P42262GRIA2DB00312Pentobarbitalapproved, investigational, vet_approvedantagonist
P42262GRIA2DB00306Talbutalapproved, illicitantagonist
P42262GRIA2DB00142Glutamic acidapproved, nutraceutical
P42262GRIA2DB01664(S)-DES-ME-AMPAexperimental
P42262GRIA2DB00898Ethanolapproved
P42262GRIA2DB01483Barbitalillicitantagonist
P42262GRIA2DB00237Butabarbitalapproved, illicitantagonist
P42262GRIA2DB07455N,N'-[biphenyl-4,4'-diyldi(2R)propane-2,1-diyl]dimethanesulfonamideexperimental
P42262GRIA2DB00241Butalbitalapproved, illicitantagonist
P42262GRIA2DB08305(3R)-3-cyclopentyl-6-methyl-7-[(4-methylpiperazin-1-yl)sulfonyl]-3,4-dihydro-2H-1,2-benzothiazine 1,1-dioxideexperimental
P42262GRIA2DB00463Metharbitalwithdrawnantagonist
P42262GRIA2DB02966Fluoro-Willardiineexperimental
P42262GRIA2DB01351Amobarbitalapproved, illicitantagonist
P42262GRIA2DB03240(S)-2-Amino-3-(1,3,5,7-Pentahydro-2,4-Dioxo-Cyclopenta[E]Pyrimidin-1-Yl) Proionic Acidexperimental
P42262GRIA2DB03319(2S)-2-Ammonio-3-[5-(2-methyl-2-propanyl)-3-oxido-1,2-oxazol-4-yl]propanoateexperimental
P42262GRIA2DB02818Iodo-Willardiineexperimental
P42262GRIA2DB075982,3,6A,7,8,9-HEXAHYDRO-11H-[1,4]DIOXINO[2,3-G]PYRROLO[2,1-B][1,3]BENZOXAZIN-11-ONEexperimental
P42262GRIA2DB00794Primidoneapproved, vet_approvedantagonist
P42262GRIA2DB01355Hexobarbitalexperimentalantagonist
P42262GRIA2DB03759FG-9041experimental
P42262GRIA2DB01174Phenobarbitalapproved, investigationalantagonist
P42262GRIA2DB01354Heptabarbitalexperimentalantagonist
P42262GRIA2DB00599Thiopentalapproved, vet_approvedantagonist
P42262GRIA2DB01496Dihydro-2-thioxo-5-((5-(2-(trifluoromethyl)phenyl)-2-furanyl)methyl)-4,6(1H,5H)-pyrimidinedioneexperimental, illicitantagonist
P42262GRIA2DB04000Bromo-Willardiineexperimental
P42262GRIA2DB01352Aprobarbitalexperimental, illicitantagonist
P42262GRIA2DB01353Butobarbitalapproved, illicitantagonist
P42262GRIA2DB041522-Amino-3-(3-Hydroxy-7,8-Dihydro-6h-Cyclohepta[D]-4-Isoxazolyl)Propionic Acidexperimental
P42262GRIA2DB04129Willardiineexperimental

Related Diseases to GRIA2


check button Previous studies relating to the alternative splicing of GRIA2 and disease information from the MeSH term (PubMed)
GenePMIDTitleAbstractMeSH IDMeSH term
GRIA215006707RNA editing (R/G site) and flip-flop splicing of the AMPA receptor subunit GluR2 in nervous tissue of epilepsy patients.Editing and alternative splicing of mRNA are posttranscriptional steps probably involved in pathophysiological aspects of epilepsy. The present study analyses the alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionate (AMPA) receptor subunit GluR2 with respect to the expression of (i) editing at the R/G site and (ii) flip-flop cassettes. Nervous tissue from patients with temporal lobe epilepsy was analysed by RT-PCR followed by restriction enzyme assays. Human autoptic tissue served as control. R/G editing status: the relative amount of edited RNA was significantly increased in the hippocampal tissue, whereas no changes were found in neocortical tissues. Flip-flop expression: no significant alterations were found in relative abundance of spliced variants containing the flip exon. The increased editing at the R/G site in the hippocampal tissue of epilepsy patients may enhance responses to glutamate, resulting in a synapse operating at an increased gain.D004833Epilepsy, Temporal Lobe


Clinically important variants in GRIA2


check button (ClinVar, 04/20/2024)
accession_iduniprot_idgene_nameTypeVariantClinical_significance