6IRF

Structure of the human GluN1/GluN2A NMDA receptor in the glutamate/glycine-bound state at pH 6.3, Class I

External Resource: Annotation


Domain Annotation: ECOD Classification ECOD Database Homepage

ChainsFamily NameDomain Identifier ArchitecturePossible HomologyHomologyTopologyFamilyProvenance Source (Version)
ALig_chane6irfA2 A: alpha complex topologyX: Voltage-gated ion channels (From Topology)H: Voltage-gated ion channels (From Topology)T: Voltage-gated ion channelsF: Lig_chanECOD (1.6)
AANF_receptor_3rde6irfA1 A: a/b three-layered sandwichesX: Flavodoxin-likeH: Class I glutamine amidotransferase-likeT: Periplasmic binding protein-like IF: ANF_receptor_3rdECOD (1.6)
AANF_receptor_2nde6irfA3 A: a/b three-layered sandwichesX: Flavodoxin-likeH: Class I glutamine amidotransferase-likeT: Periplasmic binding protein-like IF: ANF_receptor_2ndECOD (1.6)
ASBP_bac_3_1ste6irfA4 A: a/b three-layered sandwichesX: Periplasmic binding protein-like II (From Topology)H: Periplasmic binding protein-like II (From Topology)T: Periplasmic binding protein-like IIF: SBP_bac_3_1stECOD (1.6)
ALig_chan_1e6irfA5 A: a/b three-layered sandwichesX: Periplasmic binding protein-like II (From Topology)H: Periplasmic binding protein-like II (From Topology)T: Periplasmic binding protein-like IIF: Lig_chan_1ECOD (1.6)
CLig_chane6irfC5 A: alpha complex topologyX: Voltage-gated ion channels (From Topology)H: Voltage-gated ion channels (From Topology)T: Voltage-gated ion channelsF: Lig_chanECOD (1.6)
CANF_receptor_3rde6irfC4 A: a/b three-layered sandwichesX: Flavodoxin-likeH: Class I glutamine amidotransferase-likeT: Periplasmic binding protein-like IF: ANF_receptor_3rdECOD (1.6)
CANF_receptor_2nde6irfC2 A: a/b three-layered sandwichesX: Flavodoxin-likeH: Class I glutamine amidotransferase-likeT: Periplasmic binding protein-like IF: ANF_receptor_2ndECOD (1.6)
CSBP_bac_3_1ste6irfC1 A: a/b three-layered sandwichesX: Periplasmic binding protein-like II (From Topology)H: Periplasmic binding protein-like II (From Topology)T: Periplasmic binding protein-like IIF: SBP_bac_3_1stECOD (1.6)
CLig_chan_1e6irfC3 A: a/b three-layered sandwichesX: Periplasmic binding protein-like II (From Topology)H: Periplasmic binding protein-like II (From Topology)T: Periplasmic binding protein-like IIF: Lig_chan_1ECOD (1.6)
BLig_chane6irfB3 A: alpha complex topologyX: Voltage-gated ion channels (From Topology)H: Voltage-gated ion channels (From Topology)T: Voltage-gated ion channelsF: Lig_chanECOD (1.6)
BANF_receptor_3rde6irfB2 A: a/b three-layered sandwichesX: Flavodoxin-likeH: Class I glutamine amidotransferase-likeT: Periplasmic binding protein-like IF: ANF_receptor_3rdECOD (1.6)
BANF_receptor_2nde6irfB5 A: a/b three-layered sandwichesX: Flavodoxin-likeH: Class I glutamine amidotransferase-likeT: Periplasmic binding protein-like IF: ANF_receptor_2ndECOD (1.6)
BLig_chan_1e6irfB1 A: a/b three-layered sandwichesX: Periplasmic binding protein-like II (From Topology)H: Periplasmic binding protein-like II (From Topology)T: Periplasmic binding protein-like IIF: Lig_chan_1ECOD (1.6)
BLig_chan_5e6irfB4 A: a/b three-layered sandwichesX: Periplasmic binding protein-like II (From Topology)H: Periplasmic binding protein-like II (From Topology)T: Periplasmic binding protein-like IIF: Lig_chan_5ECOD (1.6)
DLig_chane6irfD3 A: alpha complex topologyX: Voltage-gated ion channels (From Topology)H: Voltage-gated ion channels (From Topology)T: Voltage-gated ion channelsF: Lig_chanECOD (1.6)
DANF_receptor_3rde6irfD4 A: a/b three-layered sandwichesX: Flavodoxin-likeH: Class I glutamine amidotransferase-likeT: Periplasmic binding protein-like IF: ANF_receptor_3rdECOD (1.6)
DANF_receptor_2nde6irfD1 A: a/b three-layered sandwichesX: Flavodoxin-likeH: Class I glutamine amidotransferase-likeT: Periplasmic binding protein-like IF: ANF_receptor_2ndECOD (1.6)
DLig_chan_1e6irfD2 A: a/b three-layered sandwichesX: Periplasmic binding protein-like II (From Topology)H: Periplasmic binding protein-like II (From Topology)T: Periplasmic binding protein-like IIF: Lig_chan_1ECOD (1.6)
DLig_chan_5e6irfD5 A: a/b three-layered sandwichesX: Periplasmic binding protein-like II (From Topology)H: Periplasmic binding protein-like II (From Topology)T: Periplasmic binding protein-like IIF: Lig_chan_5ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

ChainsAccessionNameDescriptionCommentsSource
A, C
PF00060Ligand-gated ion channel (Lig_chan)Ligand-gated ion channel- Family
A, C
PF01094Receptor family ligand binding region (ANF_receptor)Receptor family ligand binding region- Family
A, C
PF00497Bacterial extracellular solute-binding proteins, family 3 (SBP_bac_3)Bacterial extracellular solute-binding proteins, family 3This is a sensor domain found in solute-binding protein family 3 members from Gram-positive bacteria, Gram-negative bacteria and archaea. It can also be found in the N-terminal of the membrane-bound lytic murein transglycosylase F (MltF) protein. Th ...This is a sensor domain found in solute-binding protein family 3 members from Gram-positive bacteria, Gram-negative bacteria and archaea. It can also be found in the N-terminal of the membrane-bound lytic murein transglycosylase F (MltF) protein. This domain recognises Nicotinate, quidalnate, pyridine-2,5-dicarboxylate and salicylate [1].
Domain
A, C
PF10613Ligated ion channel L-glutamate- and glycine-binding site (Lig_chan-Glu_bd)Ligated ion channel L-glutamate- and glycine-binding siteThis region, sometimes called the S1 domain, is the luminal domain just upstream of the first, M1, transmembrane region of transmembrane ion-channel proteins, and it binds L-glutamate and glycine [2]. It is found in association with Lig_chan, Pfam:PF ...This region, sometimes called the S1 domain, is the luminal domain just upstream of the first, M1, transmembrane region of transmembrane ion-channel proteins, and it binds L-glutamate and glycine [2]. It is found in association with Lig_chan, Pfam:PF00060.
Domain
B, D
PF10565N-methyl D-aspartate receptor 2B3 C-terminus (NMDAR2_C)N-methyl D-aspartate receptor 2B3 C-terminus- Family
B, D
PF01094Receptor family ligand binding region (ANF_receptor)Receptor family ligand binding region- Family
B, D
PF00497Bacterial extracellular solute-binding proteins, family 3 (SBP_bac_3)Bacterial extracellular solute-binding proteins, family 3This is a sensor domain found in solute-binding protein family 3 members from Gram-positive bacteria, Gram-negative bacteria and archaea. It can also be found in the N-terminal of the membrane-bound lytic murein transglycosylase F (MltF) protein. Th ...This is a sensor domain found in solute-binding protein family 3 members from Gram-positive bacteria, Gram-negative bacteria and archaea. It can also be found in the N-terminal of the membrane-bound lytic murein transglycosylase F (MltF) protein. This domain recognises Nicotinate, quidalnate, pyridine-2,5-dicarboxylate and salicylate [1].
Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
A, C
Glutamate receptor ionotropic, NMDA 1
B, D
Glutamate receptor ionotropic, NMDA 2A

InterPro: Protein Family Classification InterPro Database Homepage

ChainsAccessionNameType
A, C
IPR001638Solute-binding protein family 3/N-terminal domain of MltFDomain
A, C
IPR028082Periplasmic binding protein-like IHomologous Superfamily
A, C
IPR001508Ionotropic glutamate receptor, metazoaFamily
A, C
IPR001828Receptor, ligand binding regionDomain
A, C
IPR001320Ionotropic glutamate receptor, C-terminalDomain
A, C
IPR019594Ionotropic glutamate receptor, L-glutamate and glycine-binding domainDomain
A, C
IPR015683Ionotropic glutamate receptorFamily
B, D
IPR018884Glutamate [NMDA] receptor, epsilon subunit, C-terminalDomain
B, D
IPR001638Solute-binding protein family 3/N-terminal domain of MltFDomain
B, D
IPR028082Periplasmic binding protein-like IHomologous Superfamily
B, D
IPR001508Ionotropic glutamate receptor, metazoaFamily
B, D
IPR001828Receptor, ligand binding regionDomain
B, D
IPR001320Ionotropic glutamate receptor, C-terminalDomain
B, D
IPR019594Ionotropic glutamate receptor, L-glutamate and glycine-binding domainDomain
B, D
IPR015683Ionotropic glutamate receptorFamily

Pharos: Disease Associations Pharos Homepage Annotation

ChainsDrug Target  Associated Disease
A, C
Pharos:  Q05586
B, D
Pharos:  Q12879

Membrane Protein Annotation: OPM OPM Database Homepage

ChainsExternal LinkTypeClassSuperfamilyFamily
A, B, C, D
OPMTransmembraneAlpha-helical polytopicIon channel (VIC) superfamilyGlutamate-gated Ion Channel (GIC) family

Membrane Protein Annotation: PDBTM PDBTM Database Homepage

ChainsExternal LinkComment
A, B, C, D
PDBTMAnnotated as membrane protein by PDBTM

Membrane Protein Annotation: MemProtMD MemProtMD Database Homepage

ChainsExternal LinkComment
A, B, C, D
MemProtMDAnnotated as membrane protein by MemProtMD

Membrane Protein Annotation: mpstruc mpstruc Database Homepage

ChainsResource LinkGroupSubgroupProtein
A, B, C, D
mpstrucTRANSMEMBRANE PROTEINS: ALPHA-HELICALChannels: Other Ion ChannelsGluN1/GluN2A NMDA receptor in the glutamate/glycine-bound state at pH 7.8