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(-) Description

Title :  CRYSTAL STRUCTURE OF APLYSIA CALIFORNICA ACHBP IN COMPLEX WITH EPIBATIDINE
 
Authors :  S. B. Hansen, G. Sulzenbacher, T. Huxford, P. Marchot, P. Taylor, Y. Bourne
Date :  03 Aug 05  (Deposition) - 05 Oct 05  (Release) - 16 Jun 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  3.40
Chains :  Asym./Biol. Unit :  A,B,C,D,E
Keywords :  Receptor, Acetylcholine Binding Protein, Nicotinic Acetylcholine, Conformational Flexibility, Agonist (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  S. B. Hansen, G. Sulzenbacher, T. Huxford, P. Marchot, P. Taylor, Y. Bourne
Structures Of Aplysia Achbp Complexes With Nicotinic Agonists And Antagonists Reveal Distinctive Binding Interfaces And Conformations.
Embo J. V. 24 3635 2005
PubMed-ID: 16193063  |  Reference-DOI: 10.1038/SJ.EMBOJ.7600828

(-) Compounds

Molecule 1 - SOLUBLE ACETYLCHOLINE RECEPTOR
    Cell: SENSORY CELL
    Chains: A, B, C, D, E
    Engineered: YES
    Expression System: MAMMALIAN CELLS
    Expression System Cell Line: HEK-293
    Organism Common: CALIFORNIA SEA HARE
    Organism Scientific: APLYSIA CALIFORNICA
    Organism Taxid: 6500

 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
1EPJ5Ligand/IonEPIBATIDINE

(-) Sites  (5, 5)

Asymmetric Unit (5, 5)
No.NameEvidenceResiduesDescription
1AC1SOFTWARETYR A:93 , TRP A:147 , VAL A:148 , TYR A:188 , CYS A:190 , CYS A:191 , TYR A:195 , ILE E:106 , MET E:116 , ILE E:118BINDING SITE FOR RESIDUE EPJ A 300
2AC2SOFTWAREILE A:106 , ALA A:107 , VAL A:108 , MET A:116 , ILE A:118 , TYR B:93 , TRP B:147 , VAL B:148 , TYR B:188 , CYS B:190 , TYR B:195BINDING SITE FOR RESIDUE EPJ B 300
3AC3SOFTWAREVAL B:108 , ILE B:118 , TYR C:93 , TRP C:147 , VAL C:148 , TYR C:188BINDING SITE FOR RESIDUE EPJ C 300
4AC4SOFTWAREILE C:106 , VAL C:108 , ILE C:118 , TYR D:93 , TRP D:147 , VAL D:148 , TYR D:188 , CYS D:190 , CYS D:191BINDING SITE FOR RESIDUE EPJ D 300
5AC5SOFTWAREILE D:106 , ALA D:107 , VAL D:108 , ILE D:118 , TYR E:93 , TRP E:147 , VAL E:148 , TYR E:188 , CYS E:190 , CYS E:191 , TYR E:195BINDING SITE FOR RESIDUE EPJ E 300

(-) SS Bonds  (10, 10)

Asymmetric/Biological Unit
No.Residues
1A:127 -A:140
2A:190 -A:191
3B:127 -B:140
4B:190 -B:191
5C:127 -C:140
6C:190 -C:191
7D:127 -D:140
8D:190 -D:191
9E:127 -E:140
10E:190 -E:191

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2BYQ)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2BYQ)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2BYQ)

(-) Exons   (0, 0)

(no "Exon" information available for 2BYQ)

(-) 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:214
 aligned with Q8WSF8_APLCA | Q8WSF8 from UniProtKB/TrEMBL  Length:236

    Alignment length:214
                                    21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221    
         Q8WSF8_APLCA    12 ACVGQAHSQANLMRLKSDLFNRSPMYPGPTKDDPLTVTLGFTLQDIVKADSSTNEVDLVYYEQQRWKLNSLMWDPNEYGNITDFRTSAADIWTPDITAYSSTRPVQVLSPQIAVVTHDGSVMFIPAQRLSFMCDPTGVDSEEGATCAVKFGSWVYSGFEIDLKTDTDQVDLSSYYASSKYEILSATQTRQVQHYSCCPEPYIDVNLVVKFRERR 225
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhhhhhhhhhhhhhh.............eeeeeeeeeeeeeeee....eeeeeeeeeeeeeeeeee.hhhhh....eeeee.hhh....eee.......ee....eeeee.eeeeee..eeeeeee...........eeeeeeeee.......eeeee...............eeeeeeeeeeeee........eeeeeeeeeeee.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2byq A  -5 DDDDKLHSQANLMRLKSDLFNRSPMYPGPTKDDPLTVTLGFTLQDIVKADSSTNEVDLVYYEQQRWKLNSLMWDPNEYGNITDFRTSAADIWTPDITAYSSTRPVQVLSPQIAVVTHDGSVMFIPAQRLSFMCDPTGVDSEEGATCAVKFGSWVYSGFEIDLKTDTDQVDLSSYYASSKYEILSATQTRQVQHYSCCPEPYIDVNLVVKFRERR 208
                                     4        14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204    


Chain B from PDB  Type:PROTEIN  Length:214
 aligned with Q8WSF8_APLCA | Q8WSF8 from UniProtKB/TrEMBL  Length:236

    Alignment length:214
                                    21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221    
         Q8WSF8_APLCA    12 ACVGQAHSQANLMRLKSDLFNRSPMYPGPTKDDPLTVTLGFTLQDIVKADSSTNEVDLVYYEQQRWKLNSLMWDPNEYGNITDFRTSAADIWTPDITAYSSTRPVQVLSPQIAVVTHDGSVMFIPAQRLSFMCDPTGVDSEEGATCAVKFGSWVYSGFEIDLKTDTDQVDLSSYYASSKYEILSATQTRQVQHYSCCPEPYIDVNLVVKFRERR 225
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhhhhhhhhhhhhhh.............eeeeeeeeeeeeeeee....eeeeeeeeeeeeeeeeee.hhhhhh...eeeee........eee.......ee....eeeee.eeeeee..eeeeeee...........eeeeeeeee.......eeeee...............eeeeeeeeeeeeeee..eeeeeeeeeeeeeeee.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2byq B  -5 DDDDKLHSQANLMRLKSDLFNRSPMYPGPTKDDPLTVTLGFTLQDIVKADSSTNEVDLVYYEQQRWKLNSLMWDPNEYGNITDFRTSAADIWTPDITAYSSTRPVQVLSPQIAVVTHDGSVMFIPAQRLSFMCDPTGVDSEEGATCAVKFGSWVYSGFEIDLKTDTDQVDLSSYYASSKYEILSATQTRQVQHYSCCPEPYIDVNLVVKFRERR 208
                                     4        14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204    


Chain C from PDB  Type:PROTEIN  Length:214
 aligned with Q8WSF8_APLCA | Q8WSF8 from UniProtKB/TrEMBL  Length:236

    Alignment length:215
                                    20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220     
         Q8WSF8_APLCA    11 VACVGQAHSQANLMRLKSDLFNRSPMYPGPTKDDPLTVTLGFTLQDIVKADSSTNEVDLVYYEQQRWKLNSLMWDPNEYGNITDFRTSAADIWTPDITAYSSTRPVQVLSPQIAVVTHDGSVMFIPAQRLSFMCDPTGVDSEEGATCAVKFGSWVYSGFEIDLKTDTDQVDLSSYYASSKYEILSATQTRQVQHYSCCPEPYIDVNLVVKFRERR 225
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhhhhhhhhhhhhhh...-..........eeeeeeeeeeeeeee.....eeeeeeeeeeeeeeeeee..........eeeee.hhh....eee..eeeeeee....eeeee.eeeeee..eeeeeee...........eeeeeeeee.......eeeee...............eeeeeeeeeeeee........eeeeeeeeeeee.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2byq C  -6 KDDDDKLHSQANLMRLKSDLFNRS-MYPGPTKDDPLTVTLGFTLQDIVKADSSTNEVDLVYYEQQRWKLNSLMWDPNEYGNITDFRTSAADIWTPDITAYSSTRPVQVLSPQIAVVTHDGSVMFIPAQRLSFMCDPTGVDSEEGATCAVKFGSWVYSGFEIDLKTDTDQVDLSSYYASSKYEILSATQTRQVQHYSCCPEPYIDVNLVVKFRERR 208
                                     3        13   | |  23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203     
                                                  17 |                                                                                                                                                                                             
                                                    19                                                                                                                                                                                             


Chain D from PDB  Type:PROTEIN  Length:214
 aligned with Q8WSF8_APLCA | Q8WSF8 from UniProtKB/TrEMBL  Length:236

    Alignment length:214
                                    21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221    
         Q8WSF8_APLCA    12 ACVGQAHSQANLMRLKSDLFNRSPMYPGPTKDDPLTVTLGFTLQDIVKADSSTNEVDLVYYEQQRWKLNSLMWDPNEYGNITDFRTSAADIWTPDITAYSSTRPVQVLSPQIAVVTHDGSVMFIPAQRLSFMCDPTGVDSEEGATCAVKFGSWVYSGFEIDLKTDTDQVDLSSYYASSKYEILSATQTRQVQHYSCCPEPYIDVNLVVKFRERR 225
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhhhhhhhhhhhhh..............eeeeeeeeeeeeeee.....eeeeeeeeeeeeeeeeee..........eeeee.hhh....eee..eeeeeee....eeeee.eeeeee..eeeeeee...........eeeeeeeee.......eeeee...............eeeeeeeeeeeee........eeeeeeeeeeee.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2byq D  -5 DDDDKLHSQANLMRLKSDLFNRSPMYPGPTKDDPLTVTLGFTLQDIVKADSSTNEVDLVYYEQQRWKLNSLMWDPNEYGNITDFRTSAADIWTPDITAYSSTRPVQVLSPQIAVVTHDGSVMFIPAQRLSFMCDPTGVDSEEGATCAVKFGSWVYSGFEIDLKTDTDQVDLSSYYASSKYEILSATQTRQVQHYSCCPEPYIDVNLVVKFRERR 208
                                     4        14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204    


Chain E from PDB  Type:PROTEIN  Length:213
 aligned with Q8WSF8_APLCA | Q8WSF8 from UniProtKB/TrEMBL  Length:236

    Alignment length:213
                                    22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222   
         Q8WSF8_APLCA    13 CVGQAHSQANLMRLKSDLFNRSPMYPGPTKDDPLTVTLGFTLQDIVKADSSTNEVDLVYYEQQRWKLNSLMWDPNEYGNITDFRTSAADIWTPDITAYSSTRPVQVLSPQIAVVTHDGSVMFIPAQRLSFMCDPTGVDSEEGATCAVKFGSWVYSGFEIDLKTDTDQVDLSSYYASSKYEILSATQTRQVQHYSCCPEPYIDVNLVVKFRERR 225
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhhhhhhhh.............eeeeeeeeeeeeeeee....eeeeeeeeeeeeeeeeee.hhhhh....eeeee........eee.......ee....eeeee.eeeeee..eeeeeee...........eeeeeeeee.......eeeee...............eeeeeeeeeeeee........eeeeeeeeeeee.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2byq E  -4 DDDKLHSQANLMRLKSDLFNRSPMYPGPTKDDPLTVTLGFTLQDIVKADSSTNEVDLVYYEQQRWKLNSLMWDPNEYGNITDFRTSAADIWTPDITAYSSTRPVQVLSPQIAVVTHDGSVMFIPAQRLSFMCDPTGVDSEEGATCAVKFGSWVYSGFEIDLKTDTDQVDLSSYYASSKYEILSATQTRQVQHYSCCPEPYIDVNLVVKFRERR 208
                                     5        15        25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205
   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 2BYQ)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 2BYQ)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2BYQ)

(-) Gene Ontology  (7, 7)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B,C,D,E   (Q8WSF8_APLCA | Q8WSF8)
molecular function
    GO:0005230    extracellular ligand-gated ion channel activity    Enables the transmembrane transfer of an ion by a channel that opens when a specific extracellular ligand has been bound by the channel complex or one of its constituent parts.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
biological process
    GO:0034220    ion transmembrane transport    A process in which an ion is transported from one side of a membrane to the other by means of some agent such as a transporter or pore.
    GO:0006811    ion transport    The directed movement of charged atoms or small charged molecules into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore.
    GO:0006810    transport    The directed movement of substances (such as macromolecules, small molecules, ions) or cellular components (such as complexes and organelles) into, out of or within a cell, or between cells, or within a multicellular organism by means of some agent such as a transporter, pore or motor protein.
cellular component
    GO:0016021    integral component of membrane    The component of a membrane consisting of the gene products and protein complexes having at least some part of their peptide sequence embedded in the hydrophobic region of the membrane.
    GO:0016020    membrane    A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.

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  2byq
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 Related Entries

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

UniProtKB/TrEMBL
        Q8WSF8_APLCA | Q8WSF8: 2br7 2br8 2byn 2byp 2byr 2bys 2c9t 2pgz 2ph9 2uz6 2w8f 2w8g 2wn9 2wnc 2wnj 2wnl 2wzy 2x00 2xnt 2xnu 2xnv 2xys 2xyt 2xz5 2xz6 2y54 2y56 2y57 2y58 2y7y 2ymd 2yme 3c79 3c84 3gua 3peo 3pmz 3sh1 3sio 3t4m 4aft 4bfq 4bqt 4dbm 4ez1 4frr 4wv9 4xhe 4xk9 4zjs 4zk4 5ain 5brx 5bw2 5co5 5jme 5ke4 5kzu 5lxb 5syo 5tvc

(-) Related Entries Specified in the PDB File

2br7 CRYSTAL STRUCTURE OF ACETYLCHOLINE-BINDING PROTEIN (ACHBP) FROM APLYSIA CALIFORNICA IN COMPLEX WITH HEPES
2br8 CRYSTAL STRUCTURE OF ACETYLCHOLINE-BINDING PROTEIN (ACHBP) FROM APLYSIA CALIFORNICA IN COMPLEX WITH AN ALPHA-CONOTOXIN PNIA VARIANT
2byn CRYSTAL STRUCTURE OF APO ACHBP FROM APLYSIA CALIFORNICA
2byp CRYSTAL STRUCTURE OF APLYSIA CALIFORNICA ACHBP IN COMPLEX WITH ALPHA-CONOTOXIN IMI
2byr CRYSTAL STRUCTURE OF APO ACHBP FROM APLYSIA CALIFORNICA IN COMPLEX WITH METHYLLYCACONITINE
2bys CRYSTAL STRUCTURE OF ACHBP FROM APLYSIA CALIFORNICA IN COMPLEX WITH LOBELINE