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(-) Description

Title :  CRYSTAL STRUCTURE OF THE BONT/A2 RECEPTOR-BINDING DOMAIN IN COMPLEX WITH THE LUMINAL DOMAIN OF ITS NEURONAL RECEPTOR SV2C
 
Authors :  R. M. Benoit, M. A. Scharer
Date :  14 Dec 16  (Deposition) - 15 Mar 17  (Release) - 15 Mar 17  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.30
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Beta-Helix, Vesicles, Lumen, Toxin, Hydrolase, Botox (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  R. M. Benoit, M. A. Scharer, M. M. Wieser, X. Li, D. Frey, R. A. Kammerer
Crystal Structure Of The Bont/A2 Receptor-Binding Domain In Complex With The Luminal Domain Of Its Neuronal Receptor Sv2C.
Sci Rep V. 7 43588 2017
PubMed-ID: 28252640  |  Reference-DOI: 10.1038/SREP43588

(-) Compounds

Molecule 1 - BOTULINUM NEUROTOXIN TYPE A
    Chains: A
    EC Number: 3.4.24.69
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Fragment: UNP RESIDUES 871-1296
    Gene: BOTA, ATX, BNA
    Organism Scientific: CLOSTRIDIUM BOTULINUM
    Organism Taxid: 1491
    Synonym: BONT/A,BONTOXILYSIN-A,BOTOX
 
Molecule 2 - SYNAPTIC VESICLE GLYCOPROTEIN 2C
    Chains: B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Fragment: UNP RESIDUES 456-574
    Gene: SV2C, KIAA1054
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 2)

Asymmetric/Biological Unit (2, 2)
No.NameCountTypeFull Name
12PE1Ligand/IonNONAETHYLENE GLYCOL
2EDO1Ligand/Ion1,2-ETHANEDIOL

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWARESER A:1002 , ASP A:1009 , TYR A:1010binding site for residue EDO A 1301
2AC2SOFTWARETRP A:946 , ARG A:1013 , TRP A:1014 , LYS A:1070 , GLN A:1091 , ASN A:1093 , TRP A:1101 , GLY A:1102binding site for residue 2PE A 1302

(-) SS Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1A:1235 -A:1280

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Gly A:1138 -Pro A:1139

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5MOY)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5MOY)

(-) Exons   (0, 0)

(no "Exon" information available for 5MOY)

(-) 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:414
                                                                                                                                                                                                                                                                                                                                                                                                                                                               
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ....eeeeeee....eee......eeee.............eeee......eeee.hhhhh.......eeeeeeeee....hhhhh...eeeeeeee..eeeeeeee..eeeeeee.....eeeeeee..............eeeeeee....eeeeee..eeeeeee...........eeee..........eeeee..eee....hhhhhhhhhhhh....................eeee......eeee........eeee....eeee...eeee.......eeeee.............eeeeeee..eeeeee............eee.hhhhh....eeee......eeee.....eeeeeeeeee..eeeeeeehhhhhhhhh........eeee.......... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                5moy A  873 IVNTSILSIVYKKDDLIDLSRYGAKINIGDRVYYDSIDKNQIKLINLESSTIEVILKNAIVYNSMYENFSTSFWIKIPKYFSKINLNNEYTIINCIENNSGWKVSLNYGEIIWTLQDNKQNIQRVVFKYSQMVNISDYINRWIFVTITNNRLTKSKIYINGRLIDQKPISNLGNIHASNKIMFKLDGCRDPRRYIMIKYFNLFDKELNEKEIKDLYDSQSNSGILKDFWGNYLQYDKPYYMLNLFDPNKYVDVNNIGIRGYMYLKGPRGSVVTTNIYLNSTLYEGTKFIIKKYANEDNIVRNNDRVYINVVVKNKEYRLATNASQAGVEKILSALEIPDVGNLSQVVVMKSNKCKMNLQDNNGNDIGFIGFHLYDNIAKLVASNWYNRQVGKASRTFGCSWEFIPVDDGWGESS 1295
                                   882       892       902       912       922       932       942       952       962       972       982       992      1002      1012      1022      1032      1042      1052      1062      1072      1082      1092      1102      1112      1122      1132      1142      1152      1162   || 1174      1184      1194      1204      1214      1224||    1241      1251      1261      1271      1281      1291    
                                                                                                                                                                                                                                                                                                                              1166|                                                    1225|                                                              
                                                                                                                                                                                                                                                                                                                               1169                                                     1233                                                              


Chain B from PDB  Type:PROTEIN  Length:103
                                                                                                                                        
               SCOP domains ------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ............eeee.eee......eeee.eeee.eeee..eee.eeee..eee..eee..eee..eee..eee..eee....hhh.....eee..eee... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------- Transcript
                5moy B  464 DEYALLTRNVERDKYANFTINFTMENQIHTGMEYDNGRFIGVKFKSVTFKDSVFKSCTFEDVTSVNTYFKNCTFIDTVFDNTDFEPYKFIDSEFKNCSFFHNK  566
                                   473       483       493       503       513       523       533       543       553       563
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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 5MOY)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5MOY)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5MOY)

(-) Gene Ontology  (30, 32)

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
        BXA2_CLOBO | Q45894: 1e1h 2g7k 2g7n 2g7p 2g7q
        SV2C_HUMAN | Q496J9: 4jra 5jlv

(-) Related Entries Specified in the PDB File

4jra