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(-) Description

Title :  MNEMIOPSIS LEIDYI ML032222A IGLUR LBD D-SERINE COMPLEX
 
Authors :  R. G. Alberstein, M. L. Mayer
Date :  04 Mar 15  (Deposition) - 21 Oct 15  (Release) - 18 Nov 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.38
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Membrane Protein, Glutamate Receptor, Ion Channel (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  R. Alberstein, R. Grey, A. Zimmet, D. K. Simmons, M. L. Mayer
Glycine Activated Ion Channel Subunits Encoded By Ctenophor Glutamate Receptor Genes.
Proc. Natl. Acad. Sci. Usa V. 112 E6048 2015
PubMed-ID: 26460032  |  Reference-DOI: 10.1073/PNAS.1513771112

(-) Compounds

Molecule 1 - ML032222A IGLUR
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET22
    Expression System Strain: ORIGAMI B(DE3)
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Fragment: LIGAND BINDING DOMAIN
    Gene: ML032222A
    Organism Scientific: MNEMIOPSIS LEIDYI
    Organism Taxid: 27923
    Other Details: THE CONSTRUCT CONTAINS RESIDUES K409-E526 AND T682- S815 OF THE ML032222A LIGAND BINDING DOMAIN CONNECTED BY A SYNTHETIC GT LINKER

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 5)

Asymmetric/Biological Unit (3, 5)
No.NameCountTypeFull Name
1DSN2Ligand/IonD-SERINE
2GLY2Mod. Amino AcidGLYCINE
3MG1Ligand/IonMAGNESIUM ION

(-) Sites  (5, 5)

Asymmetric Unit (5, 5)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASP A:110 , GLU A:213 , HOH A:486 , ASP B:110 , GLU B:213 , HOH B:519binding site for residue MG A 301
2AC2SOFTWAREPHE A:63 , ASP A:91 , SER A:93 , ARG A:98 , ARG A:144 , HIS A:145 , PRO A:146 , GLU A:188 , TYR A:214 , GLY A:303binding site for residue DSN A 302
3AC3SOFTWAREGLU A:17 , PHE A:63 , ASP A:91 , SER A:93 , ARG A:98 , HIS A:145 , GLU A:188 , DSN A:302binding site for residue GLY A 303
4AC4SOFTWAREPHE B:63 , ASP B:91 , LEU B:92 , SER B:93 , ARG B:98 , ARG B:144 , HIS B:145 , PRO B:146 , GLU B:188 , TYR B:214 , GLY B:302binding site for residue DSN B 301
5AC5SOFTWAREPHE B:63 , ASP B:91 , SER B:93 , ARG B:98 , ARG B:144 , HIS B:145 , GLU B:188 , DSN B:301binding site for residue GLY B 302

(-) SS Bonds  (3, 3)

Asymmetric/Biological Unit
No.Residues
1A:28 -A:33
2B:28 -B:33
3B:200 -B:255

(-) Cis Peptide Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1Gln A:18 -Pro A:19
2Gln B:18 -Pro B:19

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4YKK)

(-) 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:247
                                                                                                                                                                                                                                                                                       
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eeeee........ee.....hhhh.eehhhhhhhhhhhhhhh.eeeee.........ee....eehhhhhhhhh....eeeeeee.hhhhhh..ee....eeeeeeeeee.......hhhhhhhh...eeeee..hhhhhhhhhh..hhhhhhhhhheee.hhhhhhhhhhh..eeeeeehhhhhh.......eee....eeeeeeeeee.....hhhhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4ykk A   4 NLIGRHLRLGSVEEQPFMFFATEGCEGNDCWSGMVNDMVVKLSEDLGFTYEYIQPDDRKFGALNKTTNEWNGMIRDLLDDKTDMIAIDLSTNSARKSAIDYSFPFMDAGIKAVVKGEGTTLNQVLELLDQDKYKWGVIGSRHPETLLKTHRDSRYSRLVDEGVELKDLNHAIETLRGGLFVFIDEGPVLAHNLISDCDVFSVGEEFQSFEYAFGLPKDSPYKSLIDSHLLKFREEGFIDILWEKWSS 250
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       


Chain B 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....eeeeeee.hhhhhhhhee....eeeeeeeeee.......hhhhhhhh...eeeee..hhhhhhhhhh..hhhhhhhhhheee.hhhhhhhhhhh..eeeeeehhhhhhhh.....eee....eeeeeeeeee.....hhhhhhhhhhhhhhhhhhhhhhhhhh...... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4ykk B   1 GSKNLIGRHLRLGSVEEQPFMFFATEGCEGNDCWSGMVNDMVVKLSEDLGFTYEYIQPDDRKFGALNKTTNEWNGMIRDLLDDKTDMIAIDLSTNSARKSAIDYSFPFMDAGIKAVVKGEGTTLNQVLELLDQDKYKWGVIGSRHPETLLKTHRDSRYSRLVDEGVELKDLNHAIETLRGGLFVFIDEGPVLAHNLISDCDVFSVGEEFQSFEYAFGLPKDSPYKSLIDSHLLKFREEGFIDILWEKWSSGNSVC 255
                                    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
   Legend:   → Mismatch (orange background)
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  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  (0, 0)

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

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (0, 0)

Asymmetric/Biological Unit(hide GO term definitions)
    (no "Gene Ontology" information available for 4YKK)

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 Related Entries

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

UniProtKB/TrEMBL
        A0A0R4I973_M | A0A0R4I973: 4yki 4ykj 4ykp 5cmb 5cmc

(-) Related Entries Specified in the PDB File

4yki SAME PROTEIN WITH GLYCINE
4ykj SAME PROTEIN WITH ALANINE
4ykp
4ykv