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(-) Description

Title :  GLUN2D LIGAND-BINDING CORE IN COMPLEX WITH PROPYL-NHP5G
 
Authors :  K. B. Hansen, N. Tajima, R. Risgaard, R. E. Perszyk, L. Jorgensen, K. M. V K. K. Ogden, R. P. Clausen, H. Furukawa, S. F. Traynelis
Date :  27 Mar 13  (Deposition) - 29 May 13  (Release) - 17 Jul 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.00
Chains :  Asym./Biol. Unit :  A
Keywords :  Bilobed Structure, Ion Channel, Transport Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  K. B. Hansen, N. Tajima, R. Risgaard, R. E. Perszyk, L. Jorgensen, K. M. Vance, K. K. Ogden, R. P. Clausen, H. Furukawa, S. F. Traynelis
Structural Determinants Of Agonist Efficacy At The Glutamat Binding Site Of N-Methyl-D-Aspartate Receptors.
Mol. Pharmacol. V. 84 114 2013
PubMed-ID: 23625947  |  Reference-DOI: 10.1124/MOL.113.085803

(-) Compounds

Molecule 1 - GLUTAMATE RECEPTOR IONOTROPIC, NMDA 2D
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET22
    Expression System Strain: ORIGAMI B (DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Fragment: LIGAND BINDING DOMAIN
    Gene: GRIN2D, GLUN2D
    Organism Common: BROWN RAT,RAT,RATS
    Organism Scientific: RATTUS NORVEGICUS
    Organism Taxid: 10116
    Synonym: GLUN2D, GLUTAMATE [NMDA] RECEPTOR SUBUNIT EPSILON-4, N- METHYL D-ASPARTATE RECEPTOR SUBTYPE 2D, NMDAR2D, NR2D

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

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

Asymmetric/Biological Unit (1, 1)
No.NameCountTypeFull Name
11N41Ligand/Ion(2R)-AMINO(1-HYDROXY-4-PROPYL-1H-PYRAZOL-5-YL)ETHANOICACID

(-) Sites  (1, 1)

Asymmetric Unit (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHIS A:88 , SER A:114 , THR A:116 , ARG A:121 , VAL A:169 , GLY A:172 , SER A:173 , THR A:174 , TYR A:214 , HOH A:457 , HOH A:554BINDING SITE FOR RESIDUE 1N4 A 301

(-) SS Bonds  (3, 3)

Asymmetric/Biological Unit
No.Residues
1A:30 -A:58
2A:37 -A:59
3A:229 -A:284

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Arg A:15 -Pro A:16

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4JWY)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4JWY)

(-) Exons   (0, 0)

(no "Exon" information available for 4JWY)

(-) Sequences/Alignments

Asymmetric/Biological 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:269
                                                                                                                                                                                                                                                                                                             
               SCOP domains d4jwya_ A: automated matches                                                                                                                                                                                                                                                  SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeee.......eeee............eeeee.....eeeehhhhhhhhhhhhhhh.eeeeee........ee..eehhhhhhhhh....ee......hhhhhh..ee....eee.eeeeee.........hhhhhhhhhh.....ee....hhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhh.....eeeeehhhhhhhhhh.....eeeee.......eee..ee.....hhhhhhhhhhhhhhhhhhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4jwy A   5 QHLTVATLEERPFVIVEPADPISGTCIRDSVPCRSQLNEKRCCKGFCIDILKRLAHTIGFSYDLYLVTNGKHGKKIDGVWNGMIGEVFYQRADMAIGSLTINEERSEIVDFSVPFVETGISVMVARGTTVSGLSDRKFQRPQEQYPPLKFGTVPNGSTEKNIRSNYPDMHSYMVRYNQPRVEEALTQLKAGKLDAFIYDAAVLNYMARKDEGCKLVTIGSGKVFATTGYGIALHKGSRWKRPIDLALLQFLGDDEIEMLERLWLSGICH 285
                                    14        24        34       |56        66        76        86        96       106       116       126       136       146       156       166       176       186       196       206       216       226       236       246       256       266       276         
                                                                42|                                                                                                                                                                                                                                      
                                                                 55
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  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Class: Alpha and beta proteins (a/b) (23833)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4JWY)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4JWY)

(-) Gene Ontology  (25, 25)

Asymmetric/Biological Unit(hide GO term definitions)

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 Related Entries

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

UniProtKB/Swiss-Prot
        NMDE4_RAT | Q62645: 3oek 3oel 3oem 3oen

(-) Related Entries Specified in the PDB File

4jwx