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(-) Description

Title :  CLOSTRIDIUM PERFRINGENS EPSILON TOXIN SHOWS STRUCTURAL SIMILARITY WITH THE PORE FORMING TOXIN AEROLYSIN
 
Authors :  A. R. Cole, M. Gibert, M. Poppoff, D. S. Moss, R. W. Titball, A. K. Basak
Date :  02 Mar 04  (Deposition) - 05 Aug 04  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.60
Chains :  Asym. Unit :  A,B,C
Biol. Unit 1:  A  (3x)
Biol. Unit 2:  B  (3x)
Biol. Unit 3:  C  (3x)
Keywords :  Toxin, Beta Pore Forming Toxin (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  A. R. Cole, M. Gibert, M. Popoff, D. S. Moss, R. W. Titball, A. K. Basak
Clostridium Perfringens Epsilon-Toxin Shows Structural Similarity To The Pore-Forming Toxin Aerolysin
Nat. Struct. Mol. Biol. V. 11 797 2004
PubMed-ID: 15258571  |  Reference-DOI: 10.1038/NSMB804

(-) Compounds

Molecule 1 - EPSILON-TOXIN
    Chains: A, B, C
    Organism Scientific: CLOSTRIDIUM PERFRINGENS
    Organism Taxid: 1502
    Variant: TOXINOTYPE D

 Structural Features

(-) Chains, Units

  123
Asymmetric Unit : ABC
Biological Unit 1 (3x): A  
Biological Unit 2 (3x):  B 
Biological Unit 3 (3x):   C

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 12)

Asymmetric Unit (1, 12)
No.NameCountTypeFull Name
1U112Ligand/IonURANIUM ATOM
Biological Unit 1 (0, 0)
No.NameCountTypeFull Name
1U1-1Ligand/IonURANIUM ATOM
Biological Unit 2 (0, 0)
No.NameCountTypeFull Name
1U1-1Ligand/IonURANIUM ATOM
Biological Unit 3 (0, 0)
No.NameCountTypeFull Name
1U1-1Ligand/IonURANIUM ATOM

(-) Sites  (10, 10)

Asymmetric Unit (10, 10)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREGLU A:137 , GLU A:178 , GLU A:251BINDING SITE FOR RESIDUE U1 A1296
02AC2SOFTWAREGLU A:70BINDING SITE FOR RESIDUE U1 A1297
03AC3SOFTWARELYS A:255 , GLU A:266BINDING SITE FOR RESIDUE U1 A1298
04AC4SOFTWARETYR A:42 , GLU B:137 , GLU B:178 , GLU B:251BINDING SITE FOR RESIDUE U1 B1296
05AC5SOFTWAREGLU B:70BINDING SITE FOR RESIDUE U1 B1297
06AC6SOFTWAREGLU A:159 , GLU B:232BINDING SITE FOR RESIDUE U1 B1298
07AC7SOFTWARELYS B:255 , GLU B:266 , HOH B:2012BINDING SITE FOR RESIDUE U1 B1299
08AC8SOFTWARELYS C:87 , GLU C:137 , GLU C:178 , GLU C:251BINDING SITE FOR RESIDUE U1 C1296
09AC9SOFTWARELYS C:255 , GLU C:266BINDING SITE FOR RESIDUE U1 C1297
10BC1SOFTWAREGLU C:70BINDING SITE FOR RESIDUE U1 C1298

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1UYJ)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1UYJ)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1UYJ)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1UYJ)

(-) Exons   (0, 0)

(no "Exon" information available for 1UYJ)

(-) 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:273
 aligned with Q57398_CLOPF | Q57398 from UniProtKB/TrEMBL  Length:328

    Alignment length:280
                                    57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287       297       307       317       327
         Q57398_CLOPF    48 SYDNVDTLIEKGRYNTKYNYLKRMEKYYPNAMAYFDKVTINPQGNDFYINNPKVELDGEPSMNYLEDVYVGKALLTNDTQQEQKLKSQSFTCKNTDTVTATTTHTVGTSIQATAKFTVPFNETGVSLTTSYSFANTNTNTNSKEITHNVPSQDILVPANTTVEVIAYLKKVNVKGNVKLVGQVSGSEWGEIPSYLAFPRDGYKFSLSDTVNKSDLNEDGTININGKGNYSAVMGDELIVKVRNLNTNNVQEYVIPVDKKEKSNDSNIVKYRSLSIKAPGI 327
               SCOP domains d1uyja_ A: Epsilon-toxin, ETX                                                                                                                                                                                                                                                            SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhhhhhhhhhhhhhhhhhhhhh..hhhhh.....eeeee..eeeeeeeee....eeee.....eeeeeee......eeee...eeeeeeeeeeeeeee........eeeee..........eeeee.....eeeeeeeeeeee...eeee...eeeeeeeeeeeeeeeeeeeeeeeee.eeeeee........eeeeee.hhhh..........eeeeeeeeeeeeeeeeeeeeeee.....eeeeee...-------..eee....eee.... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1uyj A  16 SYDNVDTLIEKGRYNTKYNYLKRMEKYYPNAMAYFDKVTINPQGNDFYINNPKVELDGEPSMNYLEDVYVGKALLTNDTQQEQKLKSQSFTCKNTDTVTATTTHTVGTSIQATAKFTVPFNETGVSLTTSYSFANTNTNTNSKEITHNVPSQDILVPANTTVEVIAYLKKVNVKGNVKLVGQVSGSEWGEIPSYLAFPRDGYKFSLSDTVNKSDLNEDGTININGKGNYSAVMGDELIVKVRNLNTNNVQEYVIPVD-------SNIVKYRSLSIKAPGI 295
                                    25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265      |  -    |  285       295
                                                                                                                                                                                                                                                                                          272     280               


Chain B from PDB  Type:PROTEIN  Length:273
 aligned with Q57398_CLOPF | Q57398 from UniProtKB/TrEMBL  Length:328

    Alignment length:280
                                    57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287       297       307       317       327
         Q57398_CLOPF    48 SYDNVDTLIEKGRYNTKYNYLKRMEKYYPNAMAYFDKVTINPQGNDFYINNPKVELDGEPSMNYLEDVYVGKALLTNDTQQEQKLKSQSFTCKNTDTVTATTTHTVGTSIQATAKFTVPFNETGVSLTTSYSFANTNTNTNSKEITHNVPSQDILVPANTTVEVIAYLKKVNVKGNVKLVGQVSGSEWGEIPSYLAFPRDGYKFSLSDTVNKSDLNEDGTININGKGNYSAVMGDELIVKVRNLNTNNVQEYVIPVDKKEKSNDSNIVKYRSLSIKAPGI 327
               SCOP domains d1uyjb_ B: Epsilon-toxin, ETX                                                                                                                                                                                                                                                            SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhhhhhhhhhhhhhhhhh......hhhhh.....eeeee..eeeeeeeee....eeee.....eeeeeee......eeee...eeeeeeeeeeeeeee........eeeee..........eeeee.....eeeeeeeeeeee...eeee...eeeeeeeeeeeeeeeeeeeeeeeee.eeeeee........eeeeee.hhhh..........eeeeeeeeeeeeeeeeeeeeeee....eeeeee....-------..eee....eee.... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1uyj B  16 SYDNVDTLIEKGRYNTKYNYLKRMEKYYPNAMAYFDKVTINPQGNDFYINNPKVELDGEPSMNYLEDVYVGKALLTNDTQQEQKLKSQSFTCKNTDTVTATTTHTVGTSIQATAKFTVPFNETGVSLTTSYSFANTNTNTNSKEITHNVPSQDILVPANTTVEVIAYLKKVNVKGNVKLVGQVSGSEWGEIPSYLAFPRDGYKFSLSDTVNKSDLNEDGTININGKGNYSAVMGDELIVKVRNLNTNNVQEYVIPVD-------SNIVKYRSLSIKAPGI 295
                                    25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265      |  -    |  285       295
                                                                                                                                                                                                                                                                                          272     280               


Chain C from PDB  Type:PROTEIN  Length:273
 aligned with Q57398_CLOPF | Q57398 from UniProtKB/TrEMBL  Length:328

    Alignment length:280
                                    57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287       297       307       317       327
         Q57398_CLOPF    48 SYDNVDTLIEKGRYNTKYNYLKRMEKYYPNAMAYFDKVTINPQGNDFYINNPKVELDGEPSMNYLEDVYVGKALLTNDTQQEQKLKSQSFTCKNTDTVTATTTHTVGTSIQATAKFTVPFNETGVSLTTSYSFANTNTNTNSKEITHNVPSQDILVPANTTVEVIAYLKKVNVKGNVKLVGQVSGSEWGEIPSYLAFPRDGYKFSLSDTVNKSDLNEDGTININGKGNYSAVMGDELIVKVRNLNTNNVQEYVIPVDKKEKSNDSNIVKYRSLSIKAPGI 327
               SCOP domains d1uyjc_ C: Epsilon-toxin, ETX                                                                                                                                                                                                                                                            SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhhhhhhhhhhhhhhhhh.....hhhhhh.....eeeee..eeeeeeeee....eeee.....eeeeeee......eeee...eeeeeeeeeeeeeee........eeeee..........eeeee.....eeeeeeeeeeee...eeee...eeeeeeeeeeeeeeeeeeeeeeeee.eeeeee........eeeeee.hhh...........eeeeeeeeeeeeeeeeeeeeeee....eeeeee....-------..eee....eee.... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1uyj C  16 SYDNVDTLIEKGRYNTKYNYLKRMEKYYPNAMAYFDKVTINPQGNDFYINNPKVELDGEPSMNYLEDVYVGKALLTNDTQQEQKLKSQSFTCKNTDTVTATTTHTVGTSIQATAKFTVPFNETGVSLTTSYSFANTNTNTNSKEITHNVPSQDILVPANTTVEVIAYLKKVNVKGNVKLVGQVSGSEWGEIPSYLAFPRDGYKFSLSDTVNKSDLNEDGTININGKGNYSAVMGDELIVKVRNLNTNNVQEYVIPVD-------SNIVKYRSLSIKAPGI 295
                                    25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265      |  -    |  285       295
                                                                                                                                                                                                                                                                                          272     280
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
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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  (1, 3)

Asymmetric Unit
(-)
Class: Membrane and cell surface proteins and peptides (2046)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 1UYJ)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1UYJ)

(-) Gene Ontology  (0, 0)

Asymmetric Unit(hide GO term definitions)
    (no "Gene Ontology" information available for 1UYJ)

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