9unk: Difference between revisions

Latest revision as of 07:23, 18 February 2026

native NMDA receptor-GluN1/N2B in the closed state

Structural highlights

9unk is a 4 chain structure with sequence from Mus musculus. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:	Electron Microscopy, Resolution 3.37Å
Ligands:	GLU, GLY, JC9, NAG
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

NMDZ1_MOUSE 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:12008020, PubMed:12860921, PubMed:14602821, PubMed:1532151, PubMed:8060614, PubMed:9049108). NMDARs participate in synaptic plasticity for learning and memory formation by contributing to the long-term potentiation (LTP) (By similarity). Channel activation requires binding of the neurotransmitter L-glutamate to the GluN2 subunit, glycine or D-serine binding to the GluN1 subunit, plus membrane depolarization to eliminate channel inhibition by Mg(2+) (PubMed:12008020, PubMed:1532151, PubMed:7790891, PubMed:8060614). NMDARs mediate simultaneously the potasium efflux and the influx of calcium and sodium (PubMed:12860921). Each GluN2 or GluN3 subunit confers differential attributes to channel properties, including activation, deactivation and desensitization kinetics, pH sensitivity, Ca2(+) permeability, and binding to allosteric modulators (PubMed:12008020, PubMed:14602821).[UniProtKB:Q05586]^[1] ^[2] ^[3] ^[4] ^[5] ^[6] ^[7]

References

↑ Matsuda K, Kamiya Y, Matsuda S, Yuzaki M. Cloning and characterization of a novel NMDA receptor subunit NR3B: a dominant subunit that reduces calcium permeability. Brain Res Mol Brain Res. 2002 Apr 30;100(1-2):43-52. PMID:12008020 doi:10.1016/s0169-328x(02)00173-0
↑ Ichinose T, Yu S, Wang XQ, Yu SP. Ca2+-independent, but voltage receptor outward K+ current in mouse cortical neurons. J Physiol. 2003 Sep 1;551(Pt 2):403-17. PMID:12860921 doi:10.1113/jphysiol.2003.041723
↑ Matsuda K, Fletcher M, Kamiya Y, Yuzaki M. Specific assembly with the NMDA receptor 3B subunit controls surface expression and calcium permeability of NMDA receptors. J Neurosci. 2003 Nov 5;23(31):10064-73. PMID:14602821 doi:10.1523/JNEUROSCI.23-31-10064.2003
↑ Yamazaki M, Mori H, Araki K, Mori KJ, Mishina M. Cloning, expression and modulation of a mouse NMDA receptor subunit. FEBS Lett. 1992 Mar 23;300(1):39-45. PMID:1532151 doi:10.1016/0014-5793(92)80160-i
↑ Matsui T, Sekiguchi M, Hashimoto A, Tomita U, Nishikawa T, Wada K. Functional comparison of D-serine and glycine in rodents: the effect on cloned NMDA receptors and the extracellular concentration. J Neurochem. 1995 Jul;65(1):454-8. PMID:7790891 doi:10.1046/j.1471-4159.1995.65010454.x
↑ Forrest D, Yuzaki M, Soares HD, Ng L, Luk DC, Sheng M, Stewart CL, Morgan JI, Connor JA, Curran T. Targeted disruption of NMDA receptor 1 gene abolishes NMDA response and results in neonatal death. Neuron. 1994 Aug;13(2):325-38. PMID:8060614 doi:10.1016/0896-6273(94)90350-6
↑ Iino M, Ciani S, Tsuzuki K, Ozawa S, Kidokoro Y. Permeation properties of Na+ and Ca2+ ions through the mouse epsilon2/zeta1 NMDA receptor channel expressed in Xenopus oocytes. J Membr Biol. 1997 Jan 15;155(2):143-56. PMID:9049108 doi:10.1007/s002329900166

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OCA

[1] Matsuda K, Kamiya Y, Matsuda S, Yuzaki M. Cloning and characterization of a novel NMDA receptor subunit NR3B: a dominant subunit that reduces calcium permeability. Brain Res Mol Brain Res. 2002 Apr 30;100(1-2):43-52. PMID:12008020 doi:10.1016/s0169-328x(02)00173-0

[2] Ichinose T, Yu S, Wang XQ, Yu SP. Ca2+-independent, but voltage receptor outward K+ current in mouse cortical neurons. J Physiol. 2003 Sep 1;551(Pt 2):403-17. PMID:12860921 doi:10.1113/jphysiol.2003.041723

[3] Matsuda K, Fletcher M, Kamiya Y, Yuzaki M. Specific assembly with the NMDA receptor 3B subunit controls surface expression and calcium permeability of NMDA receptors. J Neurosci. 2003 Nov 5;23(31):10064-73. PMID:14602821 doi:10.1523/JNEUROSCI.23-31-10064.2003

[4] Yamazaki M, Mori H, Araki K, Mori KJ, Mishina M. Cloning, expression and modulation of a mouse NMDA receptor subunit. FEBS Lett. 1992 Mar 23;300(1):39-45. PMID:1532151 doi:10.1016/0014-5793(92)80160-i

[5] Matsui T, Sekiguchi M, Hashimoto A, Tomita U, Nishikawa T, Wada K. Functional comparison of D-serine and glycine in rodents: the effect on cloned NMDA receptors and the extracellular concentration. J Neurochem. 1995 Jul;65(1):454-8. PMID:7790891 doi:10.1046/j.1471-4159.1995.65010454.x

[6] Forrest D, Yuzaki M, Soares HD, Ng L, Luk DC, Sheng M, Stewart CL, Morgan JI, Connor JA, Curran T. Targeted disruption of NMDA receptor 1 gene abolishes NMDA response and results in neonatal death. Neuron. 1994 Aug;13(2):325-38. PMID:8060614 doi:10.1016/0896-6273(94)90350-6

[7] Iino M, Ciani S, Tsuzuki K, Ozawa S, Kidokoro Y. Permeation properties of Na+ and Ca2+ ions through the mouse epsilon2/zeta1 NMDA receptor channel expressed in Xenopus oocytes. J Membr Biol. 1997 Jan 15;155(2):143-56. PMID:9049108 doi:10.1007/s002329900166

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@@ Line 1: / Line 1: @@
-'''Unreleased structure'''
-The entry 9unk is ON HOLD
+==native NMDA receptor-GluN1/N2B in the closed state==
+<StructureSection load='9unk' size='340' side='right'caption='[[9unk]], [[Resolution|resolution]] 3.37&Aring;' scene=''>
-Authors:
+== Structural highlights ==
+<table><tr><td colspan='2'>[[9unk]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=9UNK OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=9UNK FirstGlance]. <br>
-Description:
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">Electron Microscopy, [[Resolution|Resolution]] 3.37&#8491;</td></tr>
-[[Category: Unreleased Structures]]
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GLU:GLUTAMIC+ACID'>GLU</scene>, <scene name='pdbligand=GLY:GLYCINE'>GLY</scene>, <scene name='pdbligand=JC9:(2~{S})-2-(2-chlorophenyl)-2-(methylamino)cyclohexan-1-one'>JC9</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene></td></tr>
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=9unk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=9unk OCA], [https://pdbe.org/9unk PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=9unk RCSB], [https://www.ebi.ac.uk/pdbsum/9unk PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=9unk ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/NMDZ1_MOUSE NMDZ1_MOUSE] 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:12008020, PubMed:12860921, PubMed:14602821, PubMed:1532151, PubMed:8060614, PubMed:9049108). NMDARs participate in synaptic plasticity for learning and memory formation by contributing to the long-term potentiation (LTP) (By similarity). Channel activation requires binding of the neurotransmitter L-glutamate to the GluN2 subunit, glycine or D-serine binding to the GluN1 subunit, plus membrane depolarization to eliminate channel inhibition by Mg(2+) (PubMed:12008020, PubMed:1532151, PubMed:7790891, PubMed:8060614). NMDARs mediate simultaneously the potasium efflux and the influx of calcium and sodium (PubMed:12860921). Each GluN2 or GluN3 subunit confers differential attributes to channel properties, including activation, deactivation and desensitization kinetics, pH sensitivity, Ca2(+) permeability, and binding to allosteric modulators (PubMed:12008020, PubMed:14602821).[UniProtKB:Q05586]<ref>PMID:12008020</ref> <ref>PMID:12860921</ref> <ref>PMID:14602821</ref> <ref>PMID:1532151</ref> <ref>PMID:7790891</ref> <ref>PMID:8060614</ref> <ref>PMID:9049108</ref>
+== References ==
+<references/>
+__TOC__
+</StructureSection>
+[[Category: Large Structures]]
+[[Category: Mus musculus]]
+[[Category: Ge JP]]
+[[Category: Xu RS]]
+[[Category: Yu J]]

9unk: Difference between revisions

Latest revision as of 07:23, 18 February 2026

native NMDA receptor-GluN1/N2B in the closed state

Structural highlights

Function

References

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