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(-) Description

Title :  CRYSTAL STRUCTURE OF THE GLUA2 LIGAND-BINDING DOMAIN IN COMPLEX WITH L-ASPARTATE AT 1.50 A RESOLUTION
 
Authors :  C. Krintel, K. Frydenvang, A. M. Kaern, M. Gajhede, J. S. Kastrup
Date :  18 Dec 13  (Deposition) - 16 Apr 14  (Release) - 31 May 17  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.50
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (2x)
Keywords :  Ampa Receptor Ligand-Binding Domain, Glua2, Agonist, Membrane Protein, Membrane Protein-Agonist Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  C. Krintel, K. Frydenvang, A. Ceravalls De Rabassa, A. M. Kaern, M. Gajhede, D. S. Pickering, J. S. Kastrup
L-Asp Is A Useful Tool In The Purification Of The Ionotropi Glutamate Receptor A2 Ligand-Binding Domain.
Febs J. V. 281 2422 2014
PubMed-ID: 24673938  |  Reference-DOI: 10.1111/FEBS.12795
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - GLUTAMATE RECEPTOR 2
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET-22B(+)
    Expression System Strain: ORIGAMI B (DE3)
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Fragment: LIGAND BINDING DOMAIN (UNP RESIDUES 413-527 AND UNP RESIDUES 653-796)
    Gene: GRIA2, GLUR2
    Organism Common: RAT
    Organism Scientific: RATTUS NORVEGICUS
    Organism Taxid: 10116
    Synonym: GLUR-2,AMPA-SELECTIVE GLUTAMATE RECEPTOR 2,GLUR-B,GLUR-K2, GLUTAMATE RECEPTOR IONOTROPIC,AMPA 2

 Structural Features

(-) Chains, Units

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

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (6, 9)

Asymmetric Unit (6, 9)
No.NameCountTypeFull Name
1ACT1Ligand/IonACETATE ION
2ASP1Mod. Amino AcidASPARTIC ACID
3CL1Ligand/IonCHLORIDE ION
4GOL1Ligand/IonGLYCEROL
5LI1Ligand/IonLITHIUM ION
6SO44Ligand/IonSULFATE ION
Biological Unit 1 (4, 14)
No.NameCountTypeFull Name
1ACT2Ligand/IonACETATE ION
2ASP2Mod. Amino AcidASPARTIC ACID
3CL-1Ligand/IonCHLORIDE ION
4GOL2Ligand/IonGLYCEROL
5LI-1Ligand/IonLITHIUM ION
6SO48Ligand/IonSULFATE ION

(-) Sites  (9, 9)

Asymmetric Unit (9, 9)
No.NameEvidenceResiduesDescription
1AC1SOFTWARETYR A:61 , PRO A:89 , LEU A:90 , THR A:91 , ARG A:96 , GLY A:141 , SER A:142 , THR A:143 , GLU A:193 , HOH A:420 , HOH A:465BINDING SITE FOR RESIDUE ASP A 301
2AC2SOFTWARESER A:108 , ACT A:304BINDING SITE FOR RESIDUE CL A 302
3AC3SOFTWAREARG A:31 , HIS A:46 , LYS A:240 , GLN A:244 , SO4 A:306 , HOH A:607 , HOH A:609BINDING SITE FOR RESIDUE GOL A 303
4AC4SOFTWAREMET A:107 , SER A:108 , SER A:217 , ASN A:242 , CL A:302 , LI A:305 , HOH A:498BINDING SITE FOR RESIDUE ACT A 304
5AC5SOFTWARESER A:217 , ASN A:242 , ACT A:304 , HOH A:412 , HOH A:509BINDING SITE FOR RESIDUE LI A 305
6AC6SOFTWAREHIS A:23 , GLU A:24 , ARG A:31 , HIS A:46 , LYS A:240 , GOL A:303 , HOH A:591BINDING SITE FOR RESIDUE SO4 A 306
7AC7SOFTWARESER A:140 , LYS A:144 , ARG A:148 , HOH A:440 , HOH A:462 , HOH A:497 , HOH A:615BINDING SITE FOR RESIDUE SO4 A 307
8AC8SOFTWAREGLU A:27 , GLY A:28 , ASN A:29 , GLU A:30 , ARG A:149 , LYS A:151 , HOH A:559BINDING SITE FOR RESIDUE SO4 A 308
9AC9SOFTWAREARG A:148 , TRP A:159 , ARG A:163 , HOH A:551BINDING SITE FOR RESIDUE SO4 A 309

(-) SS Bonds  (1, 1)

Asymmetric Unit
No.Residues
1A:206 -A:261

(-) Cis Peptide Bonds  (3, 4)

Asymmetric Unit
No.Residues
1Ser A:14 -Pro A:15
2Glu A:166 -Pro A:167
3Lys A:204 -Pro A:205

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4O3C)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4O3C)

(-) Exons   (0, 0)

(no "Exon" information available for 4O3C)

(-) 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:263
                                                                                                                                                                                                                                                                                                       
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eeeee.......ee..hhhhhhhhh.eehhhhhhhhhhhhhhh..eeeee................hhhhhhhhh....ee......hhhhhh.eee....eee.eeeeee......hhhhhhh....eeee...hhhhhhhhhh.hhhhhhhhhhhhhh.......hhhhhhhhhhhh...eeeeeehhhhhhhhh.....eeee......eee..eee....hhhhhhhhhhhhhhhhhhhhhhhhhh........ Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4o3c A   1 GANKTVVVTTILESPYVMMKKNHEMLEGNERYEGYCVDLAAEIAKHCGFKYKLTIVGDGKYGARDADTKIWNGMVGELVYGKADIAIAPLTITLVREEVIDFSKPFMSLGISIMIKKGTPIESAEDLSKQTEIAYGTLDSGSTKEFFRRSKIAVFDKMWTYMRSAEPSVFVRTTAEGVARVRKSKGKYAYLLESTMNEYIEQRKPCDTMKVGGNLDSKGYGIATPKGSSLGNAVNLAVLKLNEQGLLDKLKNKWWYDKGECGD 301
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260 ||
                                                                                                                                                                                                                                                                                               262|
                                                                                                                                                                                                                                                                                                301
   Legend:   → Mismatch (orange background)
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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  (0, 0)

(no "SCOP Domain" information available for 4O3C)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4O3C)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4O3C)

(-) Gene Ontology  (49, 49)

Asymmetric Unit(hide GO term definitions)

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  4o3c
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 Related Entries

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

UniProtKB/Swiss-Prot
        GRIA2_RAT | P19491: 1ftj 1ftk 1ftl 1ftm 1fto 1fw0 1gr2 1lb8 1lb9 1lbb 1lbc 1m5b 1m5c 1m5d 1m5e 1m5f 1mm6 1mm7 1mqd 1mqg 1mqh 1mqi 1mqj 1ms7 1mxu 1mxv 1mxw 1mxx 1mxy 1mxz 1my0 1my1 1my2 1my3 1my4 1n0t 1nnk 1nnp 1p1n 1p1o 1p1q 1p1u 1p1w 1syh 1syi 1wvj 1xhy 2aix 2al4 2al5 2anj 2cmo 2gfe 2i3v 2i3w 2p2a 2uxa 2xx7 2xx8 2xx9 2xxh 2xxi 3b6q 3b6t 3b6w 3b7d 3bbr 3bft 3bfu 3bki 3dp6 3h03 3h06 3h5v 3h5w 3h6t 3h6u 3h6v 3h6w 3hsy 3ijo 3ijx 3ik6 3il1 3ilt 3ilu 3kg2 3kgc 3lsf 3lsl 3m3l 3n6v 3o28 3o29 3o2a 3o2j 3o6g 3o6h 3o6i 3pd8 3pd9 3pmv 3pmw 3pmx 3rtf 3rtw 3t93 3t96 3t9h 3t9u 3t9v 3t9x 3tdj 3tkd 3tza 4fat 4g8m 4gxs 4h8j 4igt 4isu 4iy5 4iy6 4l17 4lz5 4lz7 4lz8 4n07 4o3a 4o3b 4q30 4u1o 4u1w 4u1x 4u1y 4u1z 4u21 4u22 4u23 4u2p 4u2q 4u2r 4u4f 4u4g 4u4s 4u4x 4u5b 4u5c 4u5d 4u5e 4u5f 4uq6 4uqj 4uqk 4x48 4yma 4yu0 4z0i 5buu 5cbr 5cbs 5elv 5fhm 5fhn 5fho 5fth 5fti 5fwx 5fwy 5ide 5idf 5jei 5kbs 5kbt 5kbu 5kbv 5kk2 5l1b 5l1e 5l1f 5l1g 5l1h 5vhw 5vhx 5vhy 5vhz 5vot 5vou 5vov

(-) Related Entries Specified in the PDB File

1ftj GLUA2 S1S2J IN COMPLEX WITH THE FULL AGONIST GLUTAMATE
1fto GLUA2 LIGAND BINDING CORE (S1S2J) IN THE APO STATE
4o3a
4o3b