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(-) Description

Title :  BINDING DOMAIN OF BONT/A COMPLEXED WITH GANGLIOSIDE VARIANT
 
Authors :  R. P. -A. Berntsson, L. M. Svensson, P. Stenmark
Date :  20 Oct 16  (Deposition) - 18 Jan 17  (Release) - 18 Jan 17  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.60
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Binding Domain, Lectin, Ganglioside Binding, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  C. Hamark, R. P. Berntsson, G. Masuyer, L. M. Henriksson, R. Gustafsson, P. Stenmark, G. Widmalm
Glycans Confer Specificity To The Recognition Of Gangliosid Receptors By Botulinum Neurotoxin A.
J. Am. Chem. Soc. V. 139 218 2017
PubMed-ID: 27958736  |  Reference-DOI: 10.1021/JACS.6B09534

(-) Compounds

Molecule 1 - BOTULINUM NEUROTOXIN TYPE A
    Chains: A, B
    EC Number: 3.4.24.69
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET28
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Gene: BOTA, ATX, BNA
    Organism Scientific: CLOSTRIDIUM BOTULINUM
    Organism Taxid: 1491
    Synonym: BONT/A,BONTOXILYSIN-A,BOTOX

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (1x): A 
Biological Unit 2 (1x):  B

Summary Information (see also Sequences/Alignments below)

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

Asymmetric Unit (3, 3)
No.NameCountTypeFull Name
1GAL1Ligand/IonBETA-D-GALACTOSE
2NGA1Ligand/IonN-ACETYL-D-GALACTOSAMINE
3SIA1Ligand/IonO-SIALIC ACID
Biological Unit 1 (0, 0)
No.NameCountTypeFull Name
1GAL-1Ligand/IonBETA-D-GALACTOSE
2NGA-1Ligand/IonN-ACETYL-D-GALACTOSAMINE
3SIA-1Ligand/IonO-SIALIC ACID
Biological Unit 2 (3, 3)
No.NameCountTypeFull Name
1GAL1Ligand/IonBETA-D-GALACTOSE
2NGA1Ligand/IonN-ACETYL-D-GALACTOSAMINE
3SIA1Ligand/IonO-SIALIC ACID

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASN A:1051 , TYR B:1117 , TYR B:1267 , THR B:1277 , LEU B:1278 , GLY B:1279 , GAL B:2302binding site for residue SIA B 2301
2AC2SOFTWAREGLU B:1203 , PHE B:1252 , HIS B:1253 , SER B:1264 , TRP B:1266 , TYR B:1267 , SIA B:2301binding site for Poly-Saccharide residues GAL B 2302 through NGA B 2303

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5TPB)

(-) Cis Peptide Bonds  (2, 2)

Asymmetric Unit
No.Residues
1Gly A:1138 -Pro A:1139
2Gly B:1138 -Pro B:1139

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 5TPB)

(-) 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:411
                                                                                                                                                                                                                                                                                                                                                                                                                                                            
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eeeeee..eeee....eeeeee...eee.......eeee.....eeeeee......ee....eeeeeeee.....hhhhh...eeeeeeee..eeeeeeee..eeeeeee.....eeeeeee..............eeeeeee....eeeeee..eeeeeee......ee...eeeeeee.......eeeeeeeeee....hhhhhhhhhhhhhh..................eeee......eeee........eeee....eeee...eeee......eeeeee..............eeeeeeee..eeeeee.........ee.eeehhhhhh....eeeeee.........eeeeee.....eeeeeeeee....eeeeee....eeee............ Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                5tpb A  874 MDTSILNLRYESNHLIDLSRYASKINIGSKVNFDPIDKNQIQLFNLESSKIEVILKNAIVYNSMYENFSTSFWIRIPKYFNSISLNNEYTIINCMENNSGWKVSLNYGEIIWTLQDTQEIKQRVVFKYSQMINISDYINRWIFVTITNNRLNNSKIYINGRLIDQKPISNLGNIHASNNIMFKLDGCRDTHRYIWIKYFNLFDKELNEKEIKDLYDNQSNSGILKDFWGDYLQYDKPYYMLNLYDPNKYVDVNNVGIRGYMYLKGPRGSVMTTNIYLNSSLYRGTKFIIKKYASGNKDNIVRNNDRVYINVVVKNKEYRLATNASQAGVEKILSALEIPDVGNLSQVVVMKSKNDQGITNKCKMNLQDNNGNDIGFIGFHQFNNIAKLVASNGCSWEFIPVDDGWGERPLQ 1297
                                   883       893       903       913       923       933       943       953       963       973       983       993      1003      1013      1023      1033      1043      1053      1063      1073      1083      1093      1103      1113      1123      1133      1143      1153      1163      1173      1183      1193      1203      1213      1223      1233      1243      1253      1263 ||   1286      1296 
                                                                                                                                                                                                                                                                                                                                                                                                                                1265|                  
                                                                                                                                                                                                                                                                                                                                                                                                                                 1279                  


Chain B from PDB  Type:PROTEIN  Length:407
                                                                                                                                                                                                                                                                                                                                                                                                                                                        
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeee....eee......eeee...eee.......eeee.....eeeee.hhhhh.ee....eeeeeeee.....hhhhh...eeeeeeee..eeeeeeee..eeeeeee.....eeeeeee..............eeeeeee....eeeeee..eeeeeee......ee...eeeeeee.......eeeeeeeeee....hhhhhhhhhhhhh...................eeee......eeee........eeee....eeee...eeee.......eeeee..............eeeeeeee..eeeeee.........ee.eee.hhhhh....eeeee..eeeee.....eeeeeeeee....eeeeeehhhhhh......eeee............ Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                5tpb B  877 SILNLRYESNHLIDLSRYASKINIGSKVNFDPIDKNQIQLFNLESSKIEVILKNAIVYNSMYENFSTSFWIRIPKYFNSISLNNEYTIINCMENNSGWKVSLNYGEIIWTLQDTQEIKQRVVFKYSQMINISDYINRWIFVTITNNRLNNSKIYINGRLIDQKPISNLGNIHASNNIMFKLDGCRDTHRYIWIKYFNLFDKELNEKEIKDLYDNQSNSGILKDFWGDYLQYDKPYYMLNLYDPNKYVDVNNVGIRGYMYLKGPRGSVMTTNIYLNSSLYRGTKFIIKKYASGNKDNIVRNNDRVYINVVVKNKEYRLATNASQAGVEKILSALEIPDVGNLSQVVVMKSCKMNLQDNNGNDIGFIGFHQFNNIAKLVASNWYNRQRTLGCSWEFIPVDDGWGERPLQ 1297
                                   886       896       906       916       926       936       946       956       966       976       986       996      1006      1016      1026      1036      1046      1056      1066      1076      1086      1096      1106      1116      1126      1136      1146      1156      1166      1176      1186      1196      1206      1216      1235      1245      1255      1265    ||1280      1290       
                                                                                                                                                                                                                                                                                                                                                                                     1225|                               1270|                     
                                                                                                                                                                                                                                                                                                                                                                                      1235                                1276
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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 5TPB)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (22, 22)

Asymmetric Unit(hide GO term definitions)

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 Related Entries

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

UniProtKB/Swiss-Prot
        BXA1_CLOBO | P10845: 1uee 1xtf 1xtg 2ilp 2ima 2imb 2imc 2ise 2isg 2ish 2nyy 2nz9 2vu9 2vua 2w2d 3bok 3bon 3boo 3bta 3bwi 3c88 3c89 3c8a 3c8b 3dda 3ddb 3ds9 3fuo 3v0a 3v0b 3v0c 3zur 3zus 4ej5 4el4 4elc 4hev 4iqp 4jra 4zjx 5jlv 5jmc 5tpc 5vgv 5vgx

(-) Related Entries Specified in the PDB File

2vu9