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(-) Description

Title :  CRYSTAL STRUCTURE OF THE GLUK3 LIGAND-BINDING DOMAIN (S1S2) IN COMPLEX WITH THE AGONIST (2S,4R)-4-(3-METHOXY-3-OXOPROPYL)GLUTAMIC ACID AT 2.01 A RESOLUTION.
 
Authors :  A. P. Larsen, R. Venskutonyte, K. Frydenvang, M. Gajhede, J. S. Kastrup
Date :  06 Dec 13  (Deposition) - 06 Aug 14  (Release) - 22 Oct 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.01
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  A  (2x)
Keywords :  Kainate Receptor Ligand-Binding Domain, Agonist, Ionotropic Glutamate Receptor, Membrane Protein, Receptor-Agonist Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  R. Venskutonyte, A. P. Larsen, K. Frydenvang, M. Gajhede, E. Sagot, Z. Assaf, T. Gefflaut, D. S. Pickering, L. Bunch, J. S. Kastrup
Molecular Recognition Of Two 2, 4-Syn-Functionalized (S)-Glutamate Analogues By The Kainate Receptor Gluk3 Ligan Binding Domain.
Chemmedchem V. 9 2254 2014
PubMed-ID: 25044437  |  Reference-DOI: 10.1002/CMDC.201402204
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - GLUTAMATE RECEPTOR IONOTROPIC, KAINATE 3
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: POPINJ
    Expression System Strain: ORIGAMI 2
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Fragment: UNP RESIDUES 432-546 AND UNP RESIDUES 669-806
    Gene: GLUR7, GRIK3
    Organism Common: BROWN RAT,RAT,RATS
    Organism Scientific: RATTUS NORVEGICUS
    Organism Taxid: 10116
    Synonym: GLUK3, GLUTAMATE RECEPTOR 7, GLUR-7, GLUR7

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit : A
Biological Unit 1 (1x): A
Biological Unit 2 (2x): A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 5)

Asymmetric Unit (4, 5)
No.NameCountTypeFull Name
12QE1Ligand/Ion(2S,4R)-4-(3-METHOXY-3-OXOPROPYL) GLUTAMIC ACID
2CL1Ligand/IonCHLORIDE ION
3K2Ligand/IonPOTASSIUM ION
4PO41Ligand/IonPHOSPHATE ION
Biological Unit 1 (2, 2)
No.NameCountTypeFull Name
12QE1Ligand/Ion(2S,4R)-4-(3-METHOXY-3-OXOPROPYL) GLUTAMIC ACID
2CL-1Ligand/IonCHLORIDE ION
3K-1Ligand/IonPOTASSIUM ION
4PO41Ligand/IonPHOSPHATE ION
Biological Unit 2 (2, 4)
No.NameCountTypeFull Name
12QE2Ligand/Ion(2S,4R)-4-(3-METHOXY-3-OXOPROPYL) GLUTAMIC ACID
2CL-1Ligand/IonCHLORIDE ION
3K-1Ligand/IonPOTASSIUM ION
4PO42Ligand/IonPHOSPHATE ION

(-) Sites  (5, 5)

Asymmetric Unit (5, 5)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASN A:433 , SER A:480 , HOH A:1037 , HOH A:1187BINDING SITE FOR RESIDUE K A 901
2AC2SOFTWARESER A:452 , ARG A:454 , HOH A:1188 , HOH A:1189 , HOH A:1190 , HOH A:1191 , HOH A:1226BINDING SITE FOR RESIDUE K A 902
3AC3SOFTWARETHR A:522 , HIS A:523 , HOH A:1159 , HOH A:1171 , HOH A:1211 , HOH A:1225BINDING SITE FOR RESIDUE PO4 A 903
4AC4SOFTWARELYS A:490 , LYS A:688BINDING SITE FOR RESIDUE CL A 904
5AC5SOFTWAREGLU A:443 , TYR A:491 , PRO A:518 , LEU A:519 , THR A:520 , ARG A:525 , GLY A:690 , ALA A:691 , THR A:692 , ASN A:722 , GLU A:739 , THR A:742 , TYR A:765 , HOH A:1004 , HOH A:1010 , HOH A:1013BINDING SITE FOR RESIDUE 2QE A 905

(-) SS Bonds  (1, 1)

Asymmetric Unit
No.Residues
1A:751 -A:805

(-) Cis Peptide Bonds  (1, 1)

Asymmetric Unit
No.Residues
1Glu A:444 -Pro A:445

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4NWC)

(-) 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:255
                                                                                                                                                                                                                                                                                               
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeee.......ee.......hhhh.eehhhhhhhhhhhhhhh..eeeee...............hhhhhhhhh....ee........hhhhh.ee....eee.eeeeee......hhhhhhh....eee....hhhhhhhhhh.hhhhhhhhhhhh........hhhhhhhhhhhh.eeeeeehhhhhhhhhhh..eeee......eee..ee.....hhhhhhhhhhhhhhhhhhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4nwc A 432 TNRSLIVTTLLEEPFVMFRKSDRTLYGNDRFEGYCIDLLKELAHILGFSYEIRLVEDGKYGAQDDKGQWNGMVKELIDHKADLAVAPLTITHVREKAIDFSKPFMTLGVSILYRKGTPIDSADDLAKQTKIEYGAVKDGATMTFFKKSKISTFEKMWAFMSSKPSALVKNNEEGIQRTLTADYALLMESTTIEYITQRNCNLTQIGGLIDSKGYGIGTPMGSPYRDKITIAILQLQEEDKLHIMKEKWWRGSGCP 806
                                   441       451       461       471       481       491       501       511       521       531       541      |671       681       691       701       711       721       731       741       751       761       771       781       791       801     
                                                                                                                                              548|                                                                                                                                         
                                                                                                                                               669
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 Classification and Annotation

(-) SCOP Domains  (0, 0)

(no "SCOP Domain" information available for 4NWC)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (24, 24)

Asymmetric Unit(hide GO term definitions)

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 Related Entries

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UniProtKB/Swiss-Prot
        GRIK3_RAT | P42264: 3olz 3s9e 3u92 3u93 3u94 4e0w 4g8n 4igr 4mh5 4nwd

(-) Related Entries Specified in the PDB File

3s9e 4mh5