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O15399

- NMDE4_HUMAN

UniProt

O15399 - NMDE4_HUMAN

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Protein

Glutamate receptor ionotropic, NMDA 2D

Gene

GRIN2D

Organism
Homo sapiens (Human)
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at protein leveli

Functioni

NMDA receptor subtype of glutamate-gated ion channels with high calcium permeability and voltage-dependent sensitivity to magnesium. Mediated by glycine.

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sitei642 – 6421Functional determinant of NMDA receptorsBy similarity

GO - Molecular functioni

  1. extracellular-glutamate-gated ion channel activity Source: RefGenome
  2. N-methyl-D-aspartate selective glutamate receptor activity Source: RefGenome

GO - Biological processi

  1. adult locomotory behavior Source: Ensembl
  2. ionotropic glutamate receptor signaling pathway Source: RefGenome
  3. ion transmembrane transport Source: RefGenome
  4. regulation of sensory perception of pain Source: Ensembl
  5. signal transduction Source: ProtInc
  6. startle response Source: Ensembl
  7. synaptic transmission Source: Reactome
  8. synaptic transmission, glutamatergic Source: RefGenome
Complete GO annotation...

Keywords - Molecular functioni

Ion channel, Ligand-gated ion channel, Receptor

Keywords - Biological processi

Ion transport, Transport

Keywords - Ligandi

Calcium, Magnesium

Enzyme and pathway databases

ReactomeiREACT_20546. Ras activation uopn Ca2+ infux through NMDA receptor.
REACT_20594. Unblocking of NMDA receptor, glutamate binding and activation.
REACT_20642. CREB phosphorylation through the activation of CaMKII.
SignaLinkiO15399.

Names & Taxonomyi

Protein namesi
Recommended name:
Glutamate receptor ionotropic, NMDA 2D
Short name:
GluN2D
Alternative name(s):
EB11
Glutamate [NMDA] receptor subunit epsilon-4
N-methyl D-aspartate receptor subtype 2D
Short name:
NMDAR2D
Short name:
NR2D
Gene namesi
Name:GRIN2D
Synonyms:GluN2D, NMDAR2D
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
ProteomesiUP000005640: Chromosome 19

Organism-specific databases

HGNCiHGNC:4588. GRIN2D.

Subcellular locationi

Topology

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Topological domaini28 – 583556ExtracellularSequence AnalysisAdd
BLAST
Transmembranei584 – 60421HelicalSequence AnalysisAdd
BLAST
Topological domaini605 – 65652CytoplasmicSequence AnalysisAdd
BLAST
Transmembranei657 – 67721HelicalSequence AnalysisAdd
BLAST
Topological domaini678 – 844167ExtracellularSequence AnalysisAdd
BLAST
Transmembranei845 – 86521HelicalSequence AnalysisAdd
BLAST
Topological domaini866 – 1336471CytoplasmicSequence AnalysisAdd
BLAST

GO - Cellular componenti

  1. cell junction Source: UniProtKB-KW
  2. dendrite Source: RefGenome
  3. N-methyl-D-aspartate selective glutamate receptor complex Source: RefGenome
  4. plasma membrane Source: Reactome
  5. postsynaptic membrane Source: RefGenome
Complete GO annotation...

Keywords - Cellular componenti

Cell junction, Cell membrane, Membrane, Postsynaptic cell membrane, Synapse

Pathology & Biotechi

Organism-specific databases

PharmGKBiPA28982.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Signal peptidei1 – 2727Sequence AnalysisAdd
BLAST
Chaini28 – 13361309Glutamate receptor ionotropic, NMDA 2DPRO_0000011583Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Glycosylationi92 – 921N-linked (GlcNAc...)Sequence Analysis
Glycosylationi352 – 3521N-linked (GlcNAc...)Sequence Analysis
Glycosylationi366 – 3661N-linked (GlcNAc...)Sequence Analysis
Disulfide bondi455 ↔ 483By similarity
Disulfide bondi462 ↔ 484By similarity
Glycosylationi467 – 4671N-linked (GlcNAc...)Sequence Analysis
Glycosylationi569 – 5691N-linked (GlcNAc...)Sequence Analysis
Disulfide bondi773 ↔ 828By similarity

Keywords - PTMi

Disulfide bond, Glycoprotein

Proteomic databases

PaxDbiO15399.
PRIDEiO15399.

PTM databases

PhosphoSiteiO15399.

Expressioni

Gene expression databases

BgeeiO15399.
CleanExiHS_GRIN2D.
GenevestigatoriO15399.

Organism-specific databases

HPAiHPA038269.

Interactioni

Subunit structurei

Interacts with PDZ domains of INADL and DLG4 (By similarity). Forms heteromeric channel of a zeta subunit (GRIN1), a epsilon subunit (GRIN2A, GRIN2B, GRIN2C or GRIN2D) and a third subunit (GRIN3A or GRIN3B).By similarity

Binary interactionsi

WithEntry#Exp.IntActNotes
Dlg3Q629362EBI-1754030,EBI-349596From a different organism.

Protein-protein interaction databases

BioGridi109163. 5 interactions.
IntActiO15399. 4 interactions.
MINTiMINT-130143.
STRINGi9606.ENSP00000263269.

Structurei

3D structure databases

ProteinModelPortaliO15399.
SMRiO15399. Positions 99-862.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Motif

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Motifi1334 – 13363PDZ-bindingBy similarity

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi281 – 2866Poly-Gly
Compositional biasi908 – 9169Poly-Pro
Compositional biasi1035 – 10406Poly-Ala
Compositional biasi1209 – 12135Poly-Pro
Compositional biasi1244 – 12474Poly-Ala

Sequence similaritiesi

Keywords - Domaini

Signal, Transmembrane, Transmembrane helix

Phylogenomic databases

eggNOGiNOG282132.
GeneTreeiENSGT00760000119186.
HOGENOMiHOG000113803.
HOVERGENiHBG052637.
InParanoidiO15399.
KOiK05212.
OMAiWDYLPPR.
OrthoDBiEOG72ZCD1.
PhylomeDBiO15399.
TreeFamiTF314731.

Family and domain databases

InterProiIPR001828. ANF_lig-bd_rcpt.
IPR019594. Glu_rcpt_Glu/Gly-bd.
IPR001320. Iontro_glu_rcpt.
IPR001508. NMDA_rcpt.
IPR028082. Peripla_BP_I.
IPR001638. SBP_bac_3.
[Graphical view]
PfamiPF01094. ANF_receptor. 1 hit.
PF00060. Lig_chan. 1 hit.
PF00497. SBP_bac_3. 1 hit.
[Graphical view]
PRINTSiPR00177. NMDARECEPTOR.
SMARTiSM00918. Lig_chan-Glu_bd. 1 hit.
SM00079. PBPe. 1 hit.
[Graphical view]
SUPFAMiSSF53822. SSF53822. 1 hit.

Sequencei

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

O15399-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MRGAGGPRGP RGPAKMLLLL ALACASPFPE EAPGPGGAGG PGGGLGGARP
60 70 80 90 100
LNVALVFSGP AYAAEAARLG PAVAAAVRSP GLDVRPVALV LNGSDPRSLV
110 120 130 140 150
LQLCDLLSGL RVHGVVFEDD SRAPAVAPIL DFLSAQTSLP IVAVHGGAAL
160 170 180 190 200
VLTPKEKGST FLQLGSSTEQ QLQVIFEVLE EYDWTSFVAV TTRAPGHRAF
210 220 230 240 250
LSYIEVLTDG SLVGWEHRGA LTLDPGAGEA VLSAQLRSVS AQIRLLFCAR
260 270 280 290 300
EEAEPVFRAA EEAGLTGSGY VWFMVGPQLA GGGGSGAPGE PPLLPGGAPL
310 320 330 340 350
PAGLFAVRSA GWRDDLARRV AAGVAVVARG AQALLRDYGF LPELGHDCRA
360 370 380 390 400
QNRTHRGESL HRYFMNITWD NRDYSFNEDG FLVNPSLVVI SLTRDRTWEV
410 420 430 440 450
VGSWEQQTLR LKYPLWSRYG RFLQPVDDTQ HLTVATLEER PFVIVEPADP
460 470 480 490 500
ISGTCIRDSV PCRSQLNRTH SPPPDAPRPE KRCCKGFCID ILKRLAHTIG
510 520 530 540 550
FSYDLYLVTN GKHGKKIDGV WNGMIGEVFY QRADMAIGSL TINEERSEIV
560 570 580 590 600
DFSVPFVETG ISVMVARSNG TVSPSAFLEP YSPAVWVMMF VMCLTVVAVT
610 620 630 640 650
VFIFEYLSPV GYNRSLATGK RPGGSTFTIG KSIWLLWALV FNNSVPVENP
660 670 680 690 700
RGTTSKIMVL VWAFFAVIFL ASYTANLAAF MIQEEYVDTV SGLSDRKFQR
710 720 730 740 750
PQEQYPPLKF GTVPNGSTEK NIRSNYPDMH SYMVRYNQPR VEEALTQLKA
760 770 780 790 800
GKLDAFIYDA AVLNYMARKD EGCKLVTIGS GKVFATTGYG IALHKGSRWK
810 820 830 840 850
RPIDLALLQF LGDDEIEMLE RLWLSGICHN DKIEVMSSKL DIDNMAGVFY
860 870 880 890 900
MLLVAMGLSL LVFAWEHLVY WRLRHCLGPT HRMDFLLAFS RGMYSCCSAE
910 920 930 940 950
AAPPPAKPPP PPQPLPSPAY PAPRPAPGPA PFVPRERASV DRWRRTKGAG
960 970 980 990 1000
PPGGAGLADG FHRYYGPIEP QGLGLGLGEA RAAPRGAAGR PLSPPAAQPP
1010 1020 1030 1040 1050
QKPPPSYFAI VRDKEPAEPP AGAFPGFPSP PAPPAAAATA VGPPLCRLAF
1060 1070 1080 1090 1100
EDESPPAPAR WPRSDPESQP LLGPGAGGAG GTGGAGGGAP AAPPPCRAAP
1110 1120 1130 1140 1150
PPCPYLDLEP SPSDSEDSES LGGASLGGLE PWWFADFPYP YAERLGPPPG
1160 1170 1180 1190 1200
RYWSVDKLGG WRAGSWDYLP PRSGPAAWHC RHCASLELLP PPRHLSCSHD
1210 1220 1230 1240 1250
GLDGGWWAPP PPPWAAGPLP RRRARCGCPR SHPHRPRASH RTPAAAAPHH
1260 1270 1280 1290 1300
HRHRRAAGGW DLPPPAPTSR SLEDLSSCPR AAPARRLTGP SRHARRCPHA
1310 1320 1330
AHWGPPLPTA SHRRHRGGDL GTRRGSAHFS SLESEV
Length:1,336
Mass (Da):143,752
Last modified:May 5, 2009 - v2
Checksum:i0DB7559056AE4593
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti924 – 9241R → G in AAC15910. (PubMed:9489750)Curated
Sequence conflicti1005 – 10051P → A in AAC15910. (PubMed:9489750)Curated
Sequence conflicti1097 – 10971R → C in AAC15910. (PubMed:9489750)Curated
Sequence conflicti1130 – 11301E → D in AAC15910. (PubMed:9489750)Curated

Natural variant

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Natural varianti140 – 1401P → S in a breast cancer sample; somatic mutation. 1 Publication
VAR_035698
Natural varianti286 – 2861G → R in a breast cancer sample; somatic mutation. 1 Publication
VAR_035699
Natural varianti527 – 5271E → G in a breast cancer sample; somatic mutation. 1 Publication
VAR_035700

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U77783 mRNA. Translation: AAC15910.1.
AC008403 Genomic DNA. No translation available.
AC011527 Genomic DNA. No translation available.
CCDSiCCDS12719.1.
RefSeqiNP_000827.2. NM_000836.2.
UniGeneiHs.445015.

Genome annotation databases

EnsembliENST00000263269; ENSP00000263269; ENSG00000105464.
GeneIDi2906.
KEGGihsa:2906.
UCSCiuc002pjc.4. human.

Keywords - Coding sequence diversityi

Polymorphism

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U77783 mRNA. Translation: AAC15910.1 .
AC008403 Genomic DNA. No translation available.
AC011527 Genomic DNA. No translation available.
CCDSi CCDS12719.1.
RefSeqi NP_000827.2. NM_000836.2.
UniGenei Hs.445015.

3D structure databases

ProteinModelPortali O15399.
SMRi O15399. Positions 99-862.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

BioGridi 109163. 5 interactions.
IntActi O15399. 4 interactions.
MINTi MINT-130143.
STRINGi 9606.ENSP00000263269.

Chemistry

BindingDBi O15399.
ChEMBLi CHEMBL2591.
DrugBanki DB00659. Acamprosate.
DB06151. Acetylcysteine.
DB00289. Atomoxetine.
DB00996. Gabapentin.
DB06738. Ketobemidone.
DB04896. Milnacipran.
DB01173. Orphenadrine.
DB00312. Pentobarbital.
DB00454. Pethidine.
DB01174. Phenobarbital.
DB00418. Secobarbital.
GuidetoPHARMACOLOGYi 459.

PTM databases

PhosphoSitei O15399.

Proteomic databases

PaxDbi O15399.
PRIDEi O15399.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

Ensembli ENST00000263269 ; ENSP00000263269 ; ENSG00000105464 .
GeneIDi 2906.
KEGGi hsa:2906.
UCSCi uc002pjc.4. human.

Organism-specific databases

CTDi 2906.
GeneCardsi GC19P048898.
H-InvDB HIX0040164.
HGNCi HGNC:4588. GRIN2D.
HPAi HPA038269.
MIMi 602717. gene.
neXtProti NX_O15399.
PharmGKBi PA28982.
GenAtlasi Search...

Phylogenomic databases

eggNOGi NOG282132.
GeneTreei ENSGT00760000119186.
HOGENOMi HOG000113803.
HOVERGENi HBG052637.
InParanoidi O15399.
KOi K05212.
OMAi WDYLPPR.
OrthoDBi EOG72ZCD1.
PhylomeDBi O15399.
TreeFami TF314731.

Enzyme and pathway databases

Reactomei REACT_20546. Ras activation uopn Ca2+ infux through NMDA receptor.
REACT_20594. Unblocking of NMDA receptor, glutamate binding and activation.
REACT_20642. CREB phosphorylation through the activation of CaMKII.
SignaLinki O15399.

Miscellaneous databases

GeneWikii GRIN2D.
GenomeRNAii 2906.
NextBioi 11507.
PROi O15399.
SOURCEi Search...

Gene expression databases

Bgeei O15399.
CleanExi HS_GRIN2D.
Genevestigatori O15399.

Family and domain databases

InterProi IPR001828. ANF_lig-bd_rcpt.
IPR019594. Glu_rcpt_Glu/Gly-bd.
IPR001320. Iontro_glu_rcpt.
IPR001508. NMDA_rcpt.
IPR028082. Peripla_BP_I.
IPR001638. SBP_bac_3.
[Graphical view ]
Pfami PF01094. ANF_receptor. 1 hit.
PF00060. Lig_chan. 1 hit.
PF00497. SBP_bac_3. 1 hit.
[Graphical view ]
PRINTSi PR00177. NMDARECEPTOR.
SMARTi SM00918. Lig_chan-Glu_bd. 1 hit.
SM00079. PBPe. 1 hit.
[Graphical view ]
SUPFAMi SSF53822. SSF53822. 1 hit.
ProtoNeti Search...

Publicationsi

« Hide 'large scale' publications
  1. "Functional characterization of human N-methyl-D-aspartate subtype 1A/2D receptors."
    Hess S.D., Daggett L.P., Deal C., Lu C.-C., Johnson E.C., Velicelebi G.
    J. Neurochem. 70:1269-1279(1998) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA].
    Tissue: Fetal brain.
  2. "The DNA sequence and biology of human chromosome 19."
    Grimwood J., Gordon L.A., Olsen A.S., Terry A., Schmutz J., Lamerdin J.E., Hellsten U., Goodstein D., Couronne O., Tran-Gyamfi M., Aerts A., Altherr M., Ashworth L., Bajorek E., Black S., Branscomb E., Caenepeel S., Carrano A.V.
    , Caoile C., Chan Y.M., Christensen M., Cleland C.A., Copeland A., Dalin E., Dehal P., Denys M., Detter J.C., Escobar J., Flowers D., Fotopulos D., Garcia C., Georgescu A.M., Glavina T., Gomez M., Gonzales E., Groza M., Hammon N., Hawkins T., Haydu L., Ho I., Huang W., Israni S., Jett J., Kadner K., Kimball H., Kobayashi A., Larionov V., Leem S.-H., Lopez F., Lou Y., Lowry S., Malfatti S., Martinez D., McCready P.M., Medina C., Morgan J., Nelson K., Nolan M., Ovcharenko I., Pitluck S., Pollard M., Popkie A.P., Predki P., Quan G., Ramirez L., Rash S., Retterer J., Rodriguez A., Rogers S., Salamov A., Salazar A., She X., Smith D., Slezak T., Solovyev V., Thayer N., Tice H., Tsai M., Ustaszewska A., Vo N., Wagner M., Wheeler J., Wu K., Xie G., Yang J., Dubchak I., Furey T.S., DeJong P., Dickson M., Gordon D., Eichler E.E., Pennacchio L.A., Richardson P., Stubbs L., Rokhsar D.S., Myers R.M., Rubin E.M., Lucas S.M.
    Nature 428:529-535(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
  3. Cited for: VARIANTS [LARGE SCALE ANALYSIS] SER-140; ARG-286 AND GLY-527.

Entry informationi

Entry nameiNMDE4_HUMAN
AccessioniPrimary (citable) accession number: O15399
Entry historyi
Integrated into UniProtKB/Swiss-Prot: August 29, 2001
Last sequence update: May 5, 2009
Last modified: November 26, 2014
This is version 135 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (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.

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Human chromosome 19
    Human chromosome 19: entries, gene names and cross-references to MIM
  2. Human entries with polymorphisms or disease mutations
    List of human entries with polymorphisms or disease mutations
  3. Human polymorphisms and disease mutations
    Index of human polymorphisms and disease mutations
  4. MIM cross-references
    Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
  5. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3