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(-) Description

Title :  MUTATED SHIGA-LIKE TOXIN B SUBUNIT (G62T)
 
Authors :  H. Ling, D. Bast, J. L. Brunton, R. J. Read
Date :  11 Aug 99  (Deposition) - 16 Aug 00  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.60
Chains :  Asym./Biol. Unit :  A,B,C,D,E
Keywords :  Toxin, Receptor Binding, Protein-Carbohydrate Recognition, Ob-Fold (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  H. Ling, D. Bast, J. L. Brunton, R. J. Read
Identification Of The Primary Receptor Binding Site Of Shiga-Like Toxin B Subunits: Structures Of Mutated Shiga-Like Toxin I B-Pentamer With And Without Bound Carbohydrate
To Be Published
PubMed: search
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - PROTEIN (SHIGA-LIKE TOXIN I B SUBUNIT)
    Chains: A, B, C, D, E
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Fragment: RECEPTOR-BINDING DOMAIN
    Mutation: YES
    Organism Scientific: PHAGE H30
    Organism Taxid: 12371

 Structural Features

(-) Chains, Units

  12345
Asymmetric/Biological Unit : ABCDE

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (0, 0)

(no "Ligand,Modified Residues,Ions" information available for 1C48)

(-) Sites  (0, 0)

(no "Site" information available for 1C48)

(-) SS Bonds  (5, 5)

Asymmetric/Biological Unit
No.Residues
1A:104 -A:157
2B:204 -B:257
3C:304 -C:357
4D:404 -D:457
5E:504 -E:557

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1C48)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1C48)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1C48)

(-) Exons   (0, 0)

(no "Exon" information available for 1C48)

(-) 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:69
 aligned with STXB_BPH19 | P69179 from UniProtKB/Swiss-Prot  Length:89

    Alignment length:69
                                    30        40        50        60        70        80         
           STXB_BPH19    21 TPDCVTGKVEYTKYNDDDTFTVKVGDKELFTNRWNLQSLLLSAQITGMTVTIKTNACHNGGGFSEVIFR  89
               SCOP domains d1c48a_ A: Verotoxin-1/shiga-toxin, B-pentamer                        SCOP domains
               CATH domains 1c48A00 A:101-169  [code=2.40.50.70, no name defined]                 CATH domains
               Pfam domains --------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeeeeeeee.....eeeee..eeeee..hhhhhhhhhhhhh..eeeee...........eeeee Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------- Transcript
                 1c48 A 101 TPDCVTGKVEYTKYNDDDTFTVKVGDKELFTNRWNLQSLLLSAQITGMTVTIKTNACHNGGTFSEVIFR 169
                                   110       120       130       140       150       160         


Chain A from PDB  Type:PROTEIN  Length:69
 aligned with STXB_BPH30 | P69178 from UniProtKB/Swiss-Prot  Length:89

    Alignment length:69
                                    30        40        50        60        70        80         
           STXB_BPH30    21 TPDCVTGKVEYTKYNDDDTFTVKVGDKELFTNRWNLQSLLLSAQITGMTVTIKTNACHNGGGFSEVIFR  89
               SCOP domains d1c48a_ A: Verotoxin-1/shiga-toxin, B-pentamer                        SCOP domains
               CATH domains 1c48A00 A:101-169  [code=2.40.50.70, no name defined]                 CATH domains
               Pfam domains --------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeeeeeeee.....eeeee..eeeee..hhhhhhhhhhhhh..eeeee...........eeeee Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------- Transcript
                 1c48 A 101 TPDCVTGKVEYTKYNDDDTFTVKVGDKELFTNRWNLQSLLLSAQITGMTVTIKTNACHNGGTFSEVIFR 169
                                   110       120       130       140       150       160         


Chain B from PDB  Type:PROTEIN  Length:69
 aligned with STXB_BPH19 | P69179 from UniProtKB/Swiss-Prot  Length:89

    Alignment length:69
                                    30        40        50        60        70        80         
           STXB_BPH19    21 TPDCVTGKVEYTKYNDDDTFTVKVGDKELFTNRWNLQSLLLSAQITGMTVTIKTNACHNGGGFSEVIFR  89
               SCOP domains d1c48b_ B: Verotoxin-1/shiga-toxin, B-pentamer                        SCOP domains
               CATH domains 1c48B00 B:201-269  [code=2.40.50.70, no name defined]                 CATH domains
               Pfam domains --------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeeeeeeee.....eeeee..eeeee..hhhhhhhhhhhhh..eeeee...........eeeee Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------- Transcript
                 1c48 B 201 TPDCVTGKVEYTKYNDDDTFTVKVGDKELFTNRWNLQSLLLSAQITGMTVTIKTNACHNGGTFSEVIFR 269
                                   210       220       230       240       250       260         


Chain B from PDB  Type:PROTEIN  Length:69
 aligned with STXB_BPH30 | P69178 from UniProtKB/Swiss-Prot  Length:89

    Alignment length:69
                                    30        40        50        60        70        80         
           STXB_BPH30    21 TPDCVTGKVEYTKYNDDDTFTVKVGDKELFTNRWNLQSLLLSAQITGMTVTIKTNACHNGGGFSEVIFR  89
               SCOP domains d1c48b_ B: Verotoxin-1/shiga-toxin, B-pentamer                        SCOP domains
               CATH domains 1c48B00 B:201-269  [code=2.40.50.70, no name defined]                 CATH domains
               Pfam domains --------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeeeeeeee.....eeeee..eeeee..hhhhhhhhhhhhh..eeeee...........eeeee Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------- Transcript
                 1c48 B 201 TPDCVTGKVEYTKYNDDDTFTVKVGDKELFTNRWNLQSLLLSAQITGMTVTIKTNACHNGGTFSEVIFR 269
                                   210       220       230       240       250       260         


Chain C from PDB  Type:PROTEIN  Length:69
 aligned with STXB_BPH19 | P69179 from UniProtKB/Swiss-Prot  Length:89

    Alignment length:69
                                    30        40        50        60        70        80         
           STXB_BPH19    21 TPDCVTGKVEYTKYNDDDTFTVKVGDKELFTNRWNLQSLLLSAQITGMTVTIKTNACHNGGGFSEVIFR  89
               SCOP domains d1c48c_ C: Verotoxin-1/shiga-toxin, B-pentamer                        SCOP domains
               CATH domains 1c48C00 C:301-369  [code=2.40.50.70, no name defined]                 CATH domains
               Pfam domains --------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeee..eeee.....eeeee..eeeee..hhhhhhhhhhhhh..eeeee...........eeeee Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------- Transcript
                 1c48 C 301 TPDCVTGKVEYTKYNDDDTFTVKVGDKELFTNRWNLQSLLLSAQITGMTVTIKTNACHNGGTFSEVIFR 369
                                   310       320       330       340       350       360         


Chain C from PDB  Type:PROTEIN  Length:69
 aligned with STXB_BPH30 | P69178 from UniProtKB/Swiss-Prot  Length:89

    Alignment length:69
                                    30        40        50        60        70        80         
           STXB_BPH30    21 TPDCVTGKVEYTKYNDDDTFTVKVGDKELFTNRWNLQSLLLSAQITGMTVTIKTNACHNGGGFSEVIFR  89
               SCOP domains d1c48c_ C: Verotoxin-1/shiga-toxin, B-pentamer                        SCOP domains
               CATH domains 1c48C00 C:301-369  [code=2.40.50.70, no name defined]                 CATH domains
               Pfam domains --------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeee..eeee.....eeeee..eeeee..hhhhhhhhhhhhh..eeeee...........eeeee Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------- Transcript
                 1c48 C 301 TPDCVTGKVEYTKYNDDDTFTVKVGDKELFTNRWNLQSLLLSAQITGMTVTIKTNACHNGGTFSEVIFR 369
                                   310       320       330       340       350       360         


Chain D from PDB  Type:PROTEIN  Length:69
 aligned with STXB_BPH19 | P69179 from UniProtKB/Swiss-Prot  Length:89

    Alignment length:69
                                    30        40        50        60        70        80         
           STXB_BPH19    21 TPDCVTGKVEYTKYNDDDTFTVKVGDKELFTNRWNLQSLLLSAQITGMTVTIKTNACHNGGGFSEVIFR  89
               SCOP domains d1c48d_ D: Verotoxin-1/shiga-toxin, B-pentamer                        SCOP domains
               CATH domains 1c48D00 D:401-469  [code=2.40.50.70, no name defined]                 CATH domains
               Pfam domains --------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeeeeeeee.....eeeee..eeeee..hhhhhhhhhhhhh..eeeee...........eeeee Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------- Transcript
                 1c48 D 401 TPDCVTGKVEYTKYNDDDTFTVKVGDKELFTNRWNLQSLLLSAQITGMTVTIKTNACHNGGTFSEVIFR 469
                                   410       420       430       440       450       460         


Chain D from PDB  Type:PROTEIN  Length:69
 aligned with STXB_BPH30 | P69178 from UniProtKB/Swiss-Prot  Length:89

    Alignment length:69
                                    30        40        50        60        70        80         
           STXB_BPH30    21 TPDCVTGKVEYTKYNDDDTFTVKVGDKELFTNRWNLQSLLLSAQITGMTVTIKTNACHNGGGFSEVIFR  89
               SCOP domains d1c48d_ D: Verotoxin-1/shiga-toxin, B-pentamer                        SCOP domains
               CATH domains 1c48D00 D:401-469  [code=2.40.50.70, no name defined]                 CATH domains
               Pfam domains --------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeeeeeeee.....eeeee..eeeee..hhhhhhhhhhhhh..eeeee...........eeeee Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------- Transcript
                 1c48 D 401 TPDCVTGKVEYTKYNDDDTFTVKVGDKELFTNRWNLQSLLLSAQITGMTVTIKTNACHNGGTFSEVIFR 469
                                   410       420       430       440       450       460         


Chain E from PDB  Type:PROTEIN  Length:69
 aligned with STXB_BPH19 | P69179 from UniProtKB/Swiss-Prot  Length:89

    Alignment length:69
                                    30        40        50        60        70        80         
           STXB_BPH19    21 TPDCVTGKVEYTKYNDDDTFTVKVGDKELFTNRWNLQSLLLSAQITGMTVTIKTNACHNGGGFSEVIFR  89
               SCOP domains d1c48e_ E: Verotoxin-1/shiga-toxin, B-pentamer                        SCOP domains
               CATH domains 1c48E00 E:501-569  [code=2.40.50.70, no name defined]                 CATH domains
               Pfam domains --------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeeeeeeee.....eeeee..eeeee..hhhhhhhhhhhhh..eeeee...........eeeee Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------- Transcript
                 1c48 E 501 TPDCVTGKVEYTKYNDDDTFTVKVGDKELFTNRWNLQSLLLSAQITGMTVTIKTNACHNGGTFSEVIFR 569
                                   510       520       530       540       550       560         


Chain E from PDB  Type:PROTEIN  Length:69
 aligned with STXB_BPH30 | P69178 from UniProtKB/Swiss-Prot  Length:89

    Alignment length:69
                                    30        40        50        60        70        80         
           STXB_BPH30    21 TPDCVTGKVEYTKYNDDDTFTVKVGDKELFTNRWNLQSLLLSAQITGMTVTIKTNACHNGGGFSEVIFR  89
               SCOP domains d1c48e_ E: Verotoxin-1/shiga-toxin, B-pentamer                        SCOP domains
               CATH domains 1c48E00 E:501-569  [code=2.40.50.70, no name defined]                 CATH domains
               Pfam domains --------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeeeeeeee.....eeeee..eeeee..hhhhhhhhhhhhh..eeeee...........eeeee Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------- Transcript
                 1c48 E 501 TPDCVTGKVEYTKYNDDDTFTVKVGDKELFTNRWNLQSLLLSAQITGMTVTIKTNACHNGGTFSEVIFR 569
                                   510       520       530       540       550       560
   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  (1, 5)

Asymmetric/Biological Unit
(-)
Class: All beta proteins (24004)

(-) CATH Domains  (1, 5)

Asymmetric/Biological Unit
(-)
Class: Mainly Beta (13760)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1C48)

(-) Gene Ontology  (3, 6)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B,C,D,E   (STXB_BPH30 | P69178)
biological process
    GO:0019836    hemolysis by symbiont of host erythrocytes    The cytolytic destruction of red blood cells, with the release of intracellular hemoglobin, in the host organism by a symbiont. The host is defined as the larger of the organisms involved in a symbiotic interaction.
    GO:0009405    pathogenesis    The set of specific processes that generate the ability of an organism to induce an abnormal, generally detrimental state in another organism.
cellular component
    GO:0005576    extracellular region    The space external to the outermost structure of a cell. For cells without external protective or external encapsulating structures this refers to space outside of the plasma membrane. This term covers the host cell environment outside an intracellular parasite.

Chain A,B,C,D,E   (STXB_BPH19 | P69179)
biological process
    GO:0019836    hemolysis by symbiont of host erythrocytes    The cytolytic destruction of red blood cells, with the release of intracellular hemoglobin, in the host organism by a symbiont. The host is defined as the larger of the organisms involved in a symbiotic interaction.
    GO:0009405    pathogenesis    The set of specific processes that generate the ability of an organism to induce an abnormal, generally detrimental state in another organism.
cellular component
    GO:0005576    extracellular region    The space external to the outermost structure of a cell. For cells without external protective or external encapsulating structures this refers to space outside of the plasma membrane. This term covers the host cell environment outside an intracellular parasite.

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  1c48
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  STXB_BPH19 | P69179
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  STXB_BPH30 | P69178
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 Related Entries

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

UniProtKB/Swiss-Prot
        STXB_BPH19 | P69179: 1bos 1c4q 1cqf 1czg 1czw 1d1i 1d1k 1ojf 1qnu 2c5c 2xsc 4ull
        STXB_BPH30 | P69178: 1bos 1c4q 1cqf 1czg 1czw 1d1i 1d1k 1ojf 2c5c 2xsc 4ull

(-) Related Entries Specified in the PDB File

(no "Related Entries Specified in the PDB File" available for 1C48)