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(-) Description

Title :  CRYSTAL STRUCTURE OF THE GLUK2 (GLUR6) D776K LBD DIMER IN COMPLEX WITH KAINATE
 
Authors :  N. Nayeem, O. Mayans, T. Green
Date :  12 Nov 10  (Deposition) - 09 Feb 11  (Release) - 28 Mar 12  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  3.00
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  A,B  (1x)
Biol. Unit 2:  C,D  (1x)
Keywords :  Transport Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  N. Nayeem, O. Mayans, T. Green
Conformational Flexibility Of The Ligand-Binding Domain Dimer In Kainate Receptor Gating And Desensitization
J. Neurosci. V. 31 2916 2011
PubMed-ID: 21414913  |  Reference-DOI: 10.1523/JNEUROSCI.4771-10.2011

(-) Compounds

Molecule 1 - GLUTAMATE RECEPTOR, IONOTROPIC KAINATE 2
    ChainsA, B, C, D
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System PlasmidPET21A
    Expression System StrainBL21(DE3)
    Expression System Taxid469008
    Expression System Vector TypePLASMID
    FragmentLIGAND BINDING DOMAIN, RESIDUES 429-544,667-806
    MutationYES
    Organism CommonNORWAY RAT
    Organism ScientificRATTUS NORVEGICUS
    Organism Taxid10116
    SynonymGLUTAMATE RECEPTOR 6, GLUR-6, GLUR6

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit ABCD
Biological Unit 1 (1x)AB  
Biological Unit 2 (1x)  CD

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 4)

Asymmetric Unit (1, 4)
No.NameCountTypeFull Name
1KAI4Ligand/Ion3-(CARBOXYMETHYL)-4-ISOPROPENYLPROLINE
Biological Unit 1 (1, 2)
No.NameCountTypeFull Name
1KAI2Ligand/Ion3-(CARBOXYMETHYL)-4-ISOPROPENYLPROLINE
Biological Unit 2 (1, 2)
No.NameCountTypeFull Name
1KAI2Ligand/Ion3-(CARBOXYMETHYL)-4-ISOPROPENYLPROLINE

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLU A:440 , TYR A:488 , PRO A:516 , ALA A:518 , ARG A:523 , GLY A:688 , ALA A:689 , THR A:690 , ASN A:721 , GLU A:738BINDING SITE FOR RESIDUE KAI A 900
2AC2SOFTWAREGLU B:440 , TYR B:488 , PRO B:516 , ALA B:518 , ARG B:523 , GLY B:688 , ALA B:689 , THR B:690 , ASN B:721 , GLU B:738BINDING SITE FOR RESIDUE KAI B 900
3AC3SOFTWAREGLU C:440 , TYR C:488 , PRO C:516 , ALA C:518 , ARG C:523 , GLY C:688 , ALA C:689 , THR C:690 , ASN C:721 , GLU C:738BINDING SITE FOR RESIDUE KAI C 900
4AC4SOFTWAREGLU D:440 , TYR D:488 , PRO D:516 , ALA D:518 , ARG D:523 , GLY D:688 , ALA D:689 , THR D:690 , ASN D:721 , GLU D:738BINDING SITE FOR RESIDUE KAI D 900

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2XXY)

(-) Cis Peptide Bonds  (4, 4)

Asymmetric Unit
No.Residues
1Glu A:441 -Pro A:442
2Glu B:441 -Pro B:442
3Glu C:441 -Pro C:442
4Glu D:441 -Pro D:442

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2XXY)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2XXY)

(-) Exons   (0, 0)

(no "Exon" information available for 2XXY)

(-) Sequences/Alignments

Asymmetric Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
  Number of residues per labelling interval =   
  UniProt sequence: complete  aligned part    
   Show mapping: SCOP domains CATH domains Pfam domains Secondary structure (by author)
SAPs(SNPs) PROSITE motifs Exons
(details for a mapped element are shown in a popup box when the mouse pointer rests over it)
Chain A from PDB  Type:PROTEIN  Length:248
 aligned with GRIK2_RAT | P42260 from UniProtKB/Swiss-Prot  Length:908

    Alignment length:368
                                   441       451       461       471       481       491       501       511       521       531       541       551       561       571       581       591       601       611       621       631       641       651       661       671       681       691       701       711       721       731       741       751       761       771       781       791        
            GRIK2_RAT   432 SLIVTTILEEPYVLFKKSDKPLYGNDRFEGYCIDLLRELSTILGFTYEIRLVEDGKYGAQDDVNGQWNGMVRELIDHKADLAVAPLAITYVREKVIDFSKPFMTLGISILYRKPNGTNPGVFSFLNPLSPDIWMYILLAYLGVSCVLFVIARFSPYEWYNPHPCNPDSDVVENNFTLLNSFWFGVGALMQQGSELMPKALSTRIVGGIWWFFTLIIISSYTANLAAFLTVERMESPIDSADDLAKQTKIEYGAVEDGATMTFFKKSKISTYDKMWAFMSSRRQSVLVKSNEEGIQRVLTSDYAFLMESTTIEFVTQRNCNLTQIGGLIDSKGYGVGTPMGSPYRDKITIAILQLQEEGKLHMMKEKWW 799
               SCOP domains d2xxya_ A: automated matches                                                                                                                                                                                                                                                                                                                                                     SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeee.......ee.......hhhh.eehhhhhhhhhhhhhhh..eeeee................hhhhhhhhh....ee......hhhhhh.eee....ee..eeeeee.----------------------------------------------------------------------.------------------------------------.--------------...hhhhhhh....eeee...hhhhhhhhh..hhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhh.eeeeeehhhhhhhhhhh..eeee.......ee..eee...hhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2xxy A 432 SLIVTTILEEPYVLFKKSDKPLYGNDRFEGYCIDLLRELSTILGFTYEIRLVEDGKYGAQDDVNGQWNGMVRELIDHKADLAVAPLAITYVREKVIDFSKPFMTLGISILYRK----------------------------------------------------------------------G------------------------------------T--------------PIDSADDLAKQTKIEYGAVEDGATMTFFKKSKISTYDKMWAFMSSRRQSVLVKSNEEGIQRVLTSDYAFLMESTTIEFVTQRNCNLTQIGGLIDSKGYGVGTPMGSPYRKKITIAILQLQEEGKLHMMKEKWW 799
                                   441       451       461       471       481       491       501       511       521       531       541  |      -         -         -         -         -         -         -   |     -         -         -         -|        -     | 671       681       691       701       711       721       731       741       751       761       771       781       791        
                                                                                                                                          544                                                                    555                                  566            667                                                                                                                                    

Chain B from PDB  Type:PROTEIN  Length:248
 aligned with GRIK2_RAT | P42260 from UniProtKB/Swiss-Prot  Length:908

    Alignment length:368
                                   441       451       461       471       481       491       501       511       521       531       541       551       561       571       581       591       601       611       621       631       641       651       661       671       681       691       701       711       721       731       741       751       761       771       781       791        
            GRIK2_RAT   432 SLIVTTILEEPYVLFKKSDKPLYGNDRFEGYCIDLLRELSTILGFTYEIRLVEDGKYGAQDDVNGQWNGMVRELIDHKADLAVAPLAITYVREKVIDFSKPFMTLGISILYRKPNGTNPGVFSFLNPLSPDIWMYILLAYLGVSCVLFVIARFSPYEWYNPHPCNPDSDVVENNFTLLNSFWFGVGALMQQGSELMPKALSTRIVGGIWWFFTLIIISSYTANLAAFLTVERMESPIDSADDLAKQTKIEYGAVEDGATMTFFKKSKISTYDKMWAFMSSRRQSVLVKSNEEGIQRVLTSDYAFLMESTTIEFVTQRNCNLTQIGGLIDSKGYGVGTPMGSPYRDKITIAILQLQEEGKLHMMKEKWW 799
               SCOP domains d2xxyb_ B: automated matches                                                                                                                                                                                                                                                                                                                                                     SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeee.......ee.......hhhh.eehhhhhhhhhhhhhhh..eeeee................hhhhhhhhh....ee......hhhhhh.eee....ee..eeeeee.----------------------------------------------------------------------.------------------------------------.--------------...hhhhhhh....eeee...hhhhhhhhh..hhhhhhhhhhhhhhhhhhh..hhhhhhhhhh...eeeeeehhhhhhhhhhh..eeee.......ee..eee...hhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2xxy B 432 SLIVTTILEEPYVLFKKSDKPLYGNDRFEGYCIDLLRELSTILGFTYEIRLVEDGKYGAQDDVNGQWNGMVRELIDHKADLAVAPLAITYVREKVIDFSKPFMTLGISILYRK----------------------------------------------------------------------G------------------------------------T--------------PIDSADDLAKQTKIEYGAVEDGATMTFFKKSKISTYDKMWAFMSSRRQSVLVKSNEEGIQRVLTSDYAFLMESTTIEFVTQRNCNLTQIGGLIDSKGYGVGTPMGSPYRKKITIAILQLQEEGKLHMMKEKWW 799
                                   441       451       461       471       481       491       501       511       521       531       541  |      -         -         -         -         -         -         -   |     -         -         -         -|        -     | 671       681       691       701       711       721       731       741       751       761       771       781       791        
                                                                                                                                          544                                                                    555                                  566            667                                                                                                                                    

Chain C from PDB  Type:PROTEIN  Length:248
 aligned with GRIK2_RAT | P42260 from UniProtKB/Swiss-Prot  Length:908

    Alignment length:368
                                   441       451       461       471       481       491       501       511       521       531       541       551       561       571       581       591       601       611       621       631       641       651       661       671       681       691       701       711       721       731       741       751       761       771       781       791        
            GRIK2_RAT   432 SLIVTTILEEPYVLFKKSDKPLYGNDRFEGYCIDLLRELSTILGFTYEIRLVEDGKYGAQDDVNGQWNGMVRELIDHKADLAVAPLAITYVREKVIDFSKPFMTLGISILYRKPNGTNPGVFSFLNPLSPDIWMYILLAYLGVSCVLFVIARFSPYEWYNPHPCNPDSDVVENNFTLLNSFWFGVGALMQQGSELMPKALSTRIVGGIWWFFTLIIISSYTANLAAFLTVERMESPIDSADDLAKQTKIEYGAVEDGATMTFFKKSKISTYDKMWAFMSSRRQSVLVKSNEEGIQRVLTSDYAFLMESTTIEFVTQRNCNLTQIGGLIDSKGYGVGTPMGSPYRDKITIAILQLQEEGKLHMMKEKWW 799
               SCOP domains d2xxyc_ C: automated matches                                                                                                                                                                                                                                                                                                                                                     SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeee.......ee.......hhhh.eehhhhhhhhhhhhhhh..eeeee................hhhhhhhhh....ee......hhhhhh.eee....ee..eeeeee.----------------------------------------------------------------------.------------------------------------.--------------...hhhhhhh....eeee...hhhhhhhhh..hhhhhhhhhhhhhhhhhhh..hhhhhhhhhhh..eeeeeehhhhhhhhhhh..eeee.......ee..eee...hhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2xxy C 432 SLIVTTILEEPYVLFKKSDKPLYGNDRFEGYCIDLLRELSTILGFTYEIRLVEDGKYGAQDDVNGQWNGMVRELIDHKADLAVAPLAITYVREKVIDFSKPFMTLGISILYRK----------------------------------------------------------------------G------------------------------------T--------------PIDSADDLAKQTKIEYGAVEDGATMTFFKKSKISTYDKMWAFMSSRRQSVLVKSNEEGIQRVLTSDYAFLMESTTIEFVTQRNCNLTQIGGLIDSKGYGVGTPMGSPYRKKITIAILQLQEEGKLHMMKEKWW 799
                                   441       451       461       471       481       491       501       511       521       531       541  |      -         -         -         -         -         -         -   |     -         -         -         -|        -     | 671       681       691       701       711       721       731       741       751       761       771       781       791        
                                                                                                                                          544                                                                    555                                  566            667                                                                                                                                    

Chain D from PDB  Type:PROTEIN  Length:246
 aligned with GRIK2_RAT | P42260 from UniProtKB/Swiss-Prot  Length:908

    Alignment length:369
                                   440       450       460       470       480       490       500       510       520       530       540       550       560       570       580       590       600       610       620       630       640       650       660       670       680       690       700       710       720       730       740       750       760       770       780       790         
            GRIK2_RAT   431 RSLIVTTILEEPYVLFKKSDKPLYGNDRFEGYCIDLLRELSTILGFTYEIRLVEDGKYGAQDDVNGQWNGMVRELIDHKADLAVAPLAITYVREKVIDFSKPFMTLGISILYRKPNGTNPGVFSFLNPLSPDIWMYILLAYLGVSCVLFVIARFSPYEWYNPHPCNPDSDVVENNFTLLNSFWFGVGALMQQGSELMPKALSTRIVGGIWWFFTLIIISSYTANLAAFLTVERMESPIDSADDLAKQTKIEYGAVEDGATMTFFKKSKISTYDKMWAFMSSRRQSVLVKSNEEGIQRVLTSDYAFLMESTTIEFVTQRNCNLTQIGGLIDSKGYGVGTPMGSPYRDKITIAILQLQEEGKLHMMKEKWW 799
               SCOP domains d2xxyd_ D: automated matches                                                                                                                                                                                                                                                                                                                                                      SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) -----------Lig_chan-Glu_bd-2xxyD05 D:442-507                                 -------------------------------------                                                                      -                                    -              Lig_chan-2xxyD01 D:667-799                                                                                                            Pfam domains (1)
           Pfam domains (2) -----------Lig_chan-Glu_bd-2xxyD06 D:442-507                                 -------------------------------------                                                                      -                                    -              Lig_chan-2xxyD02 D:667-799                                                                                                            Pfam domains (2)
           Pfam domains (3) -----------Lig_chan-Glu_bd-2xxyD07 D:442-507                                 -------------------------------------                                                                      -                                    -              Lig_chan-2xxyD03 D:667-799                                                                                                            Pfam domains (3)
           Pfam domains (4) -----------Lig_chan-Glu_bd-2xxyD08 D:442-507                                 -------------------------------------                                                                      -                                    -              Lig_chan-2xxyD04 D:667-799                                                                                                            Pfam domains (4)
         Sec.struct. author .eeeeee.......ee.......hhhh.eehhhhhhhhhhhhhhh.eeeeee..........---...hhhhhhhhh....ee......hhhhhh.eee....ee..eeeeee.----------------------------------------------------------------------.------------------------------------.--------------...hhhhhhh....eeee...hhhhhhhhh..hhhhhhhhhhhhh........hhhhhhhhhhh..eeeeeehhhhhhhhhhh..eeee.......ee..eee...hhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2xxy D 431 RSLIVTTILEEPYVLFKKSDKPLYGNDRFEGYCIDLLRELSTILGFTYEIRLVEDGKYGAQD---GQWNGMVRELIDHKADLAVAPLAITYVREKVIDFSKPFMTLGISILYRK----------------------------------------------------------------------G------------------------------------T--------------PIDSADDLAKQTKIEYGAVEDGATMTFFKKSKISTYDKMWAFMSSRRQSVLVKSNEEGIQRVLTSDYAFLMESTTIEFVTQRNCNLTQIGGLIDSKGYGVGTPMGSPYRKKITIAILQLQEEGKLHMMKEKWW 799
                                   440       450       460       470       480       490 |   | 500       510       520       530       540   |     -         -         -         -         -         -         -    |    -         -         -         - |       -      |670       680       690       700       710       720       730       740       750       760       770       780       790         
                                                                                       492 496                                             544                                                                    555                                  566            667                                                                                                                                    

   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  x → Chemical Group (purple background, 'x', labelled with number + name, e.g. ACE or NH2)
  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (1, 4)

Asymmetric Unit

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 2XXY)

(-) Pfam Domains  (2, 8)

Asymmetric Unit
(-)
Clan: PBP (391)

(-) Gene Ontology  (52, 52)

Asymmetric Unit(hide GO term definitions)
Chain A,B,C,D   (GRIK2_RAT | P42260)
molecular function
    GO:0030165    PDZ domain binding    Interacting selectively and non-covalently with a PDZ domain of a protein, a domain found in diverse signaling proteins.
    GO:0005234    extracellular-glutamate-gated ion channel activity    Enables the transmembrane transfer of an ion by a channel that opens when extracellular glutamate has been bound by the channel complex or one of its constituent parts.
    GO:0008066    glutamate receptor activity    Combining with glutamate and transmitting the signal from one side of the membrane to the other to initiate a change in cell activity.
    GO:0042802    identical protein binding    Interacting selectively and non-covalently with an identical protein or proteins.
    GO:0005216    ion channel activity    Enables the facilitated diffusion of an ion (by an energy-independent process) by passage through a transmembrane aqueous pore or channel without evidence for a carrier-mediated mechanism. May be either selective (it enables passage of a specific ion only) or non-selective (it enables passage of two or more ions of same charge but different size).
    GO:0004970    ionotropic glutamate receptor activity    Catalysis of the transmembrane transfer of an ion by a channel that opens when glutamate has been bound by the channel complex or one of its constituent parts.
    GO:0015277    kainate selective glutamate receptor activity    An ionotropic glutamate receptor activity that exhibits fast gating by glutamate, acts by opening a cation channel permeable to sodium and potassium, and for which kainate is an agonist.
    GO:0005515    protein binding    Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules).
    GO:0042803    protein homodimerization activity    Interacting selectively and non-covalently with an identical protein to form a homodimer.
    GO:0004872    receptor activity    Combining with an extracellular or intracellular messenger to initiate a change in cell activity.
    GO:0031624    ubiquitin conjugating enzyme binding    Interacting selectively and non-covalently with a ubiquitin conjugating enzyme, any of the E2 proteins.
    GO:0031625    ubiquitin protein ligase binding    Interacting selectively and non-covalently with a ubiquitin protein ligase enzyme, any of the E3 proteins.
biological process
    GO:0001662    behavioral fear response    An acute behavioral change resulting from a perceived external threat.
    GO:0006874    cellular calcium ion homeostasis    Any process involved in the maintenance of an internal steady state of calcium ions at the level of a cell.
    GO:0007268    chemical synaptic transmission    The vesicular release of classical neurotransmitter molecules from a presynapse, across a chemical synapse, the subsequent activation of neurotransmitter receptors at the postsynapse of a target cell (neuron, muscle, or secretory cell) and the effects of this activation on the postsynaptic membrane potential and ionic composition of the postsynaptic cytosol. This process encompasses both spontaneous and evoked release of neurotransmitter and all parts of synaptic vesicle exocytosis. Evoked transmission starts with the arrival of an action potential at the presynapse.
    GO:0060079    excitatory postsynaptic potential    A process that leads to a temporary increase in postsynaptic potential due to the flow of positively charged ions into the postsynaptic cell. The flow of ions that causes an EPSP is an excitatory postsynaptic current (EPSC) and makes it easier for the neuron to fire an action potential.
    GO:0060080    inhibitory postsynaptic potential    A process that causes a temporary decrease in postsynaptic membrane potential due to the flow of negatively charged ions into the postsynaptic cell. The flow of ions that causes an IPSP is an inhibitory postsynaptic current (IPSC) and makes it more difficult for the neuron to fire an action potential.
    GO:0006886    intracellular protein transport    The directed movement of proteins in a cell, including the movement of proteins between specific compartments or structures within a cell, such as organelles of a eukaryotic cell.
    GO:0034220    ion transmembrane transport    A process in which an ion is transported from one side of a membrane to the other by means of some agent such as a transporter or pore.
    GO:0006811    ion transport    The directed movement of charged atoms or small charged molecules into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore.
    GO:0035235    ionotropic glutamate receptor signaling pathway    A series of molecular signals initiated by glutamate binding to a glutamate receptor on the surface of the target cell, followed by the movement of ions through a channel in the receptor complex. Ends with regulation of a downstream cellular process, e.g. transcription.
    GO:0050804    modulation of chemical synaptic transmission    Any process that modulates the frequency or amplitude of synaptic transmission, the process of communication from a neuron to a target (neuron, muscle, or secretory cell) across a synapse. Amplitude, in this case, refers to the change in postsynaptic membrane potential due to a single instance of synaptic transmission.
    GO:0043524    negative regulation of neuron apoptotic process    Any process that stops, prevents, or reduces the frequency, rate or extent of cell death by apoptotic process in neurons.
    GO:0051967    negative regulation of synaptic transmission, glutamatergic    Any process that stops, prevents, or reduces the frequency, rate or extent of glutamatergic synaptic transmission, the process of communication from a neuron to another neuron across a synapse using the neurotransmitter glutamate.
    GO:0051402    neuron apoptotic process    Any apoptotic process in a neuron, the basic cellular unit of nervous tissue. Each neuron consists of a body, an axon, and dendrites. Their purpose is to receive, conduct, and transmit impulses in the nervous system.
    GO:0019228    neuronal action potential    An action potential that occurs in a neuron.
    GO:0043525    positive regulation of neuron apoptotic process    Any process that activates or increases the frequency, rate or extent of cell death of neurons by apoptotic process.
    GO:0050806    positive regulation of synaptic transmission    Any process that activates or increases the frequency, rate or extent of synaptic transmission, the process of communication from a neuron to a target (neuron, muscle, or secretory cell) across a synapse.
    GO:0043113    receptor clustering    The receptor metabolic process that results in grouping of a set of receptors at a cellular location, often to amplify the sensitivity of a signaling response.
    GO:0046328    regulation of JNK cascade    Any process that modulates the frequency, rate or extent of signal transduction mediated by the JNK cascade.
    GO:0048169    regulation of long-term neuronal synaptic plasticity    A process that modulates long-term neuronal synaptic plasticity, the ability of neuronal synapses to change long-term as circumstances require. Long-term neuronal synaptic plasticity generally involves increase or decrease in actual synapse numbers.
    GO:0042391    regulation of membrane potential    Any process that modulates the establishment or extent of a membrane potential, the electric potential existing across any membrane arising from charges in the membrane itself and from the charges present in the media on either side of the membrane.
    GO:0048172    regulation of short-term neuronal synaptic plasticity    A process that modulates short-term neuronal synaptic plasticity, the ability of neuronal synapses to change in the short-term as circumstances require. Short-term neuronal synaptic plasticity generally involves increasing or decreasing synaptic sensitivity.
    GO:0035249    synaptic transmission, glutamatergic    The vesicular release of glutamate from a presynapse, across a chemical synapse, the subsequent activation of glutamate receptors at the postsynapse of a target cell (neuron, muscle, or secretory cell) and the effects of this activation on the postsynaptic membrane potential and ionic composition of the postsynaptic cytosol. This process encompasses both spontaneous and evoked release of neurotransmitter and all parts of synaptic vesicle exocytosis. Evoked transmission starts with the arrival of an action potential at the presynapse.
    GO:0006810    transport    The directed movement of substances (such as macromolecules, small molecules, ions) or cellular components (such as complexes and organelles) into, out of or within a cell, or between cells, or within a multicellular organism by means of some agent such as a transporter, pore or motor protein.
cellular component
    GO:0030424    axon    The long process of a neuron that conducts nerve impulses, usually away from the cell body to the terminals and varicosities, which are sites of storage and release of neurotransmitter.
    GO:0030054    cell junction    A cellular component that forms a specialized region of connection between two or more cells or between a cell and the extracellular matrix. At a cell junction, anchoring proteins extend through the plasma membrane to link cytoskeletal proteins in one cell to cytoskeletal proteins in neighboring cells or to proteins in the extracellular matrix.
    GO:0030425    dendrite    A neuron projection that has a short, tapering, often branched, morphology, receives and integrates signals from other neurons or from sensory stimuli, and conducts a nerve impulse towards the axon or the cell body. In most neurons, the impulse is conveyed from dendrites to axon via the cell body, but in some types of unipolar neuron, the impulse does not travel via the cell body.
    GO:0032839    dendrite cytoplasm    All of the contents of a dendrite, excluding the surrounding plasma membrane.
    GO:0016021    integral component of membrane    The component of a membrane consisting of the gene products and protein complexes having at least some part of their peptide sequence embedded in the hydrophobic region of the membrane.
    GO:0005887    integral component of plasma membrane    The component of the plasma membrane consisting of the gene products and protein complexes having at least some part of their peptide sequence embedded in the hydrophobic region of the membrane.
    GO:0008328    ionotropic glutamate receptor complex    A multimeric assembly of four or five subunits which form a structure with an extracellular N-terminus and a large loop that together form the ligand binding domain. The C-terminus is intracellular. The ionotropic glutamate receptor complex itself acts as a ligand-gated ion channel; on binding glutamate, charged ions pass through a channel in the center of the receptor complex.
    GO:0032983    kainate selective glutamate receptor complex    An assembly of four or five subunits which form a structure with an extracellular N-terminus and a large loop that together form the ligand binding domain. The C-terminus is intracellular. The ionotropic glutamate receptor complex itself acts as a ligand gated ion channel; on binding glutamate, charged ions pass through a channel in the center of the receptor complex. Kainate receptors are multimeric assemblies of GluK1-3 (also called GluR5-7), GluK4 (KA1) and GluK5 (KA2) subunits.
    GO:0016020    membrane    A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.
    GO:0043025    neuronal cell body    The portion of a neuron that includes the nucleus, but excludes cell projections such as axons and dendrites.
    GO:0043204    perikaryon    The portion of the cell soma (neuronal cell body) that excludes the nucleus.
    GO:0005886    plasma membrane    The membrane surrounding a cell that separates the cell from its external environment. It consists of a phospholipid bilayer and associated proteins.
    GO:0014069    postsynaptic density of dendrite    An electron dense network of proteins within and adjacent to the postsynaptic membrane of the dendrite of asymetric synapses. Its major components include neurotransmitter receptors and the proteins that spatially and functionally organize them such as anchoring and scaffolding molecules, signaling enzymes and cytoskeletal components.
    GO:0045211    postsynaptic membrane    A specialized area of membrane facing the presynaptic membrane on the tip of the nerve ending and separated from it by a minute cleft (the synaptic cleft). Neurotransmitters cross the synaptic cleft and transmit the signal to the postsynaptic membrane.
    GO:0042734    presynaptic membrane    A specialized area of membrane of the axon terminal that faces the plasma membrane of the neuron or muscle fiber with which the axon terminal establishes a synaptic junction; many synaptic junctions exhibit structural presynaptic characteristics, such as conical, electron-dense internal protrusions, that distinguish it from the remainder of the axon plasma membrane.
    GO:0045202    synapse    The junction between a nerve fiber of one neuron and another neuron, muscle fiber or glial cell. As the nerve fiber approaches the synapse it enlarges into a specialized structure, the presynaptic nerve ending, which contains mitochondria and synaptic vesicles. At the tip of the nerve ending is the presynaptic membrane; facing it, and separated from it by a minute cleft (the synaptic cleft) is a specialized area of membrane on the receiving cell, known as the postsynaptic membrane. In response to the arrival of nerve impulses, the presynaptic nerve ending secretes molecules of neurotransmitters into the synaptic cleft. These diffuse across the cleft and transmit the signal to the postsynaptic membrane.
    GO:0043195    terminal bouton    Terminal inflated portion of the axon, containing the specialized apparatus necessary to release neurotransmitters. The axon terminus is considered to be the whole region of thickening and the terminal bouton is a specialized region of it.

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(-) Entries Sharing at Least One Protein Chain (UniProt ID)

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        GRIK2_RAT | P422601s50 1s7y 1s9t 1sd3 1tt1 1yae 2i0b 2i0c 2xxr 2xxt 2xxu 2xxv 2xxw 2xxx 3g3f 3g3g 3g3h 3g3i 3g3j 3g3k 3h6g 3h6h 3qlt 3qlu 3qlv 4bdl 4bdm 4bdn 4bdo 4bdq 4bdr 4h8i 4uqq 5cmk 5cmm 5kuf 5kuh

(-) Related Entries Specified in the PDB File

1s50 X-RAY STRUCTURE OF THE GLUR6 LIGAND BINDING CORE (S1S2A) INCOMPLEX WITH GLUTAMATE AT 1.65 A RESOLUTION
1s7y CRYSTAL STRUCTURE OF THE GLUR6 LIGAND BINDING CORE INCOMPLEX WITH GLUTAMATE AT 1. 75 A RESOLUTION ORTHORHOMBICFORM
1s9t CRYSTAL STRUCTURE OF THE GLUR6 LIGAND BINDING CORE INCOMPLEX WITH QUISQUALATE AT 1 .8A RESOLUTION
1sd3 CRYSTAL STRUCTURE OF THE GLUR6 LIGAND BINDING CORE INCOMPLEX WITH 2S,4R-4- METHYLGLUTAMATE AT 1.8 ANGSTROMRESOLUTION
1tt1 CRYSTAL STRUCTURE OF THE GLUR6 LIGAND BINDING CORE INCOMPLEX WITH KAINATE 1.93 A RESOLUTION
1yae STRUCTURE OF THE KAINATE RECEPTOR SUBUNIT GLUR6 AGONISTBINDING DOMAIN COMPLEXED WITH DOMOIC ACID
2i0b CRYSTAL STRUCTURE OF THE GLUR6 LIGAND BINDING CORE ELKQMUTANT DIMER AT 1.96 ANGSTROMS RESOLUTION
2i0c CRYSTAL STRUCTURE OF THE GLUR6 LIGAND BINDING CORE DIMERCROSSLINKED BY DISULFIDE BONDS BETWEEN Y490C AND L752C AT2.25 ANGSTROMS RESOLUTION
2xxr CRYSTAL STRUCTURE OF THE GLUK2 (GLUR6) WILD -TYPE LBD DIMER IN COMPLEX WITH GLUTAMATE
2xxt CRYSTAL STRUCTURE OF THE GLUK2 (GLUR6) WILD -TYPE LBD DIMER IN COMPLEX WITH KAINATE
2xxu CRYSTAL STRUCTURE OF THE GLUK2 (GLUR6) M770K LBD DIMER IN COMPLEX WITH GLUTAMATE
2xxv CRYSTAL STRUCTURE OF THE GLUK2 (GLUR6) M770K LBD DIMER IN COMPLEX WITH KAINATE
2xxw CRYSTAL STRUCTURE OF THE GLUK2 (GLUR6) D776K LBD DIMER IN COMPLEX WITH GLUTAMATE
2xxx CRYSTAL STRUCTURE OF THE GLUK2 (GLUR6) D776K LBD DIMER IN COMPLEX WITH GLUTAMATE (P21 21 21)