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(-) Description

Title :  CRYSTAL STRUCTURE OF LYMNAEA STAGNALIS ACETYLCHOLINE BINDING PROTEIN COMPLEXED WITH THIACLOPRID
 
Authors :  T. Okajima, M. Ihara, A. Yamashita, T. Oda, K. Matsuda
Date :  11 Apr 14  (Deposition) - 04 Feb 15  (Release) - 04 Feb 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.24
Chains :  Asym./Biol. Unit :  A,B,C,D,E
Keywords :  Neonicotinoids, Nicotinic Acetylcholine Receptor, Thiacloprid, Acetylcholine Binding, Signaling Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  M. Ihara, T. Okajima, A. Yamashita, T. Oda, T. Asano, M. Matsui, D. B. Sattelle, K. Matsuda
Studies On An Acetylcholine Binding Protein Identify A Basi Residue In Loop G On The Beta 1 Strand As A New Structural Determinant Of Neonicotinoid Actions
Mol. Pharmacol. V. 86 736 2014
PubMed-ID: 25267717  |  Reference-DOI: 10.1124/MOL.114.094698

(-) Compounds

Molecule 1 - ACETYLCHOLINE-BINDING PROTEIN
    ChainsA, B, C, D, E
    EngineeredYES
    Expression SystemPICHIA PASTORIS
    Expression System PlasmidPPICZ B
    Expression System StrainX-33
    Expression System Taxid4922
    Expression System Vector TypePLASMID
    Organism CommonGREAT POND SNAIL
    Organism ScientificLYMNAEA STAGNALIS
    Organism Taxid6523
    SynonymACH-BINDING PROTEIN, ACHBP

 Structural Features

(-) Chains, Units

  12345
Asymmetric/Biological Unit ABCDE

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 5)

Asymmetric/Biological Unit (1, 5)
No.NameCountTypeFull Name
1TH45Ligand/Ion{(2Z)-3-[(6-CHLOROPYRIDIN-3-YL)METHYL]-1,3-THIAZOLIDIN-2-YLIDENE}CYANAMIDE

(-) Sites  (5, 5)

Asymmetric Unit (5, 5)
No.NameEvidenceResiduesDescription
1AC1SOFTWARETYR A:89 , TRP A:143 , THR A:144 , THR A:184 , TYR A:185 , CYS A:187 , CYS A:188 , TYR A:192 , ARG B:104 , LEU B:112 , MET B:114 , HOH B:401BINDING SITE FOR RESIDUE TH4 A 301
2AC2SOFTWARETYR B:89 , TRP B:143 , THR B:144 , THR B:184 , TYR B:185 , CYS B:187 , TYR B:192 , ARG C:104 , LEU C:112 , MET C:114 , HOH C:402BINDING SITE FOR RESIDUE TH4 B 301
3AC3SOFTWARETYR C:89 , TRP C:143 , THR C:144 , THR C:184 , TYR C:185 , CYS C:187 , TYR C:192 , ARG D:104 , LEU D:112 , MET D:114 , HOH D:401BINDING SITE FOR RESIDUE TH4 C 301
4AC4SOFTWARETYR D:89 , TRP D:143 , THR D:144 , THR D:184 , TYR D:185 , CYS D:187 , CYS D:188 , ARG E:104 , LEU E:112 , MET E:114 , HOH E:401BINDING SITE FOR RESIDUE TH4 D 301
5AC5SOFTWAREARG A:104 , LEU A:112 , MET A:114 , TRP E:143 , THR E:144 , THR E:184 , TYR E:185 , CYS E:187 , CYS E:188 , TYR E:192 , HOH E:402BINDING SITE FOR RESIDUE TH4 E 301

(-) SS Bonds  (10, 10)

Asymmetric/Biological Unit
No.Residues
1A:123 -A:136
2A:187 -A:188
3B:123 -B:136
4B:187 -B:188
5C:123 -C:136
6C:187 -C:188
7D:123 -D:136
8D:187 -D:188
9E:123 -E:136
10E:187 -E:188

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3WTJ)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3WTJ)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3WTJ)

(-) Exons   (0, 0)

(no "Exon" information available for 3WTJ)

(-) 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:208
                                                                                                                                                                                                                                                
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhh............eeeeeeeeeeeeeeee....eeeeeeeeeeeee.hhhh........eeeee.hhh....eee.......ee....eeeee...eeee..eeeeeee...........eeeeeeeee.......eeee.................eeeeeeeeeeeee........eeeeeeeeeeee.... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3wtj A   0 AADRADILYNIRQTSRPDVIPTQRDRPVAVSVSLKFINILEVNEITNEVDVVFWQQTTWSDRTLAWDSSHSPDQVSVPISSLWVPDLAAYNAISKPEVLTPQLARVVSDGEVLYMPSIRQRFSCDVSGVDTESGATCRIKIGSWTHHSREISVDPTTENSDDSEYFSQYSRFEILDVTQKKNSVTYSCCPEAYEDVEVSLNFRKKGRS 207
                                     9        19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199        

Chain B from PDB  Type:PROTEIN  Length:208
                                                                                                                                                                                                                                                
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhh............eeeeeeeeeeeeeeee....eeeeeeeeeeeee.hhhh........eeeee.hhh....eee.......ee....eeeee...eeee..eeeeeee...........eeeeeeeee.......eeeee................eeeeeeeeeeeee........eeeeeeeeeeee.... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3wtj B   0 AADRADILYNIRQTSRPDVIPTQRDRPVAVSVSLKFINILEVNEITNEVDVVFWQQTTWSDRTLAWDSSHSPDQVSVPISSLWVPDLAAYNAISKPEVLTPQLARVVSDGEVLYMPSIRQRFSCDVSGVDTESGATCRIKIGSWTHHSREISVDPTTENSDDSEYFSQYSRFEILDVTQKKNSVTYSCCPEAYEDVEVSLNFRKKGRS 207
                                     9        19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199        

Chain C from PDB  Type:PROTEIN  Length:208
                                                                                                                                                                                                                                                
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhh............eeeeeeeeeeeeeeee....eeeeeeeeeeeee.hhhh........eeeee.hhh....eee.......ee....eeeee...eeee..eeeeeee...........eeeeeeeee.......eeeee................eeeeeeeeeeeee........eeeeeeeeeeee.... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3wtj C   0 AADRADILYNIRQTSRPDVIPTQRDRPVAVSVSLKFINILEVNEITNEVDVVFWQQTTWSDRTLAWDSSHSPDQVSVPISSLWVPDLAAYNAISKPEVLTPQLARVVSDGEVLYMPSIRQRFSCDVSGVDTESGATCRIKIGSWTHHSREISVDPTTENSDDSEYFSQYSRFEILDVTQKKNSVTYSCCPEAYEDVEVSLNFRKKGRS 207
                                     9        19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199        

Chain D from PDB  Type:PROTEIN  Length:208
                                                                                                                                                                                                                                                
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhh............eeeeeeeeeeeeeeee....eeeeeeeeeeeee.............eeeee.hhh....eee.......ee....eeeee...eeee..eeeeeee...........eeeeeeeee.......eeee.................eeeeeeeeeeeee........eeeeeeeeeeee.... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3wtj D   0 AADRADILYNIRQTSRPDVIPTQRDRPVAVSVSLKFINILEVNEITNEVDVVFWQQTTWSDRTLAWDSSHSPDQVSVPISSLWVPDLAAYNAISKPEVLTPQLARVVSDGEVLYMPSIRQRFSCDVSGVDTESGATCRIKIGSWTHHSREISVDPTTENSDDSEYFSQYSRFEILDVTQKKNSVTYSCCPEAYEDVEVSLNFRKKGRS 207
                                     9        19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199        

Chain E from PDB  Type:PROTEIN  Length:208
                                                                                                                                                                                                                                                
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhh............eeeeeeeeeeee........eeeeeeeeeeeee.hhhh........eeeee.hhh....eee.......ee....eeeee...eeee..eeeeeee...........eeeeeeeee.......eeeee................eeeeeeeeeeeee........eeeeeeeeeeee.... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3wtj E   0 AADRADILYNIRQTSRPDVIPTQRDRPVAVSVSLKFINILEVNEITNEVDVVFWQQTTWSDRTLAWDSSHSPDQVSVPISSLWVPDLAAYNAISKPEVLTPQLARVVSDGEVLYMPSIRQRFSCDVSGVDTESGATCRIKIGSWTHHSREISVDPTTENSDDSEYFSQYSRFEILDVTQKKNSVTYSCCPEAYEDVEVSLNFRKKGRS 207
                                     9        19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199        

   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  (0, 0)

(no "SCOP Domain" information available for 3WTJ)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3WTJ)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3WTJ)

(-) Gene Ontology  (9, 9)

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
        ACHP_LYMST | P581541i9b 1uv6 1uw6 1ux2 1yi5 2zju 2zjv 3u8j 3u8k 3u8l 3u8m 3u8n 3wip 3wth 3wti 3wtk 3wtl 3wtm 3wtn 3wto 3zdg 3zdh 4alx 4hqp 4nzb 4qaa 4qab 4qac 4um1 4um3 4zjt 4zk1 4zr6 4zru 5afh 5afj 5afk 5afl 5afm 5afn 5bp0 5j5f 5j5g 5j5h 5j5i 5t90

(-) Related Entries Specified in the PDB File

2zju 2zjv 3wth 3wti 3wtk 3wtl 3wtm 3wtn 3wto