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(-) Description

Title :  ESCHERICHIA COLI HEAT LABILE ENTEROTOXIN TYPE IIB B-PENTAMER COMPLEXED WITH SIALYLATED SUGAR
 
Authors :  D. Zalem, J. Benktander, J. P. Ribeiro, A. Varrot, M. Lebens, A. Imberty S. Teneberg
Date :  29 Apr 16  (Deposition) - 14 Sep 16  (Release) - 09 Nov 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.72
Chains :  Asym./Biol. Unit :  D,E,F,G,H
Keywords :  Toxin, Enterotoxin, Ecoli, B Subunit, Sialic Acid (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  D. Zalem, J. P. Ribeiro, A. Varrot, M. Lebens, A. Imberty, S. Teneberg
Biochemical And Structural Characterization Of The Novel Sialic Acid-Binding Site Of Escherichia Coli Heat-Labile Enterotoxin Lt-Iib.
Biochem. J. V. 473 3923 2016
PubMed-ID: 27562297  |  Reference-DOI: 10.1042/BCJ20160575

(-) Compounds

Molecule 1 - HEAT-LABILE ENTEROTOXIN IIB, B CHAIN
    Chains: D, E, H
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Expression System Vector: BLUESCRIPT-KS
    Expression System Vector Type: PLASMID
    Fragment: RESIDUES 24-122
    Organism Scientific: ESCHERICHIA COLI
    Organism Taxid: 634468
    Strain: HB101
 
Molecule 2 - HEAT-LABILE ENTEROTOXIN IIB, B CHAIN
    Chains: F, G
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Expression System Vector: BLUESCRIPT-KS
    Expression System Vector Type: PLASMID
    Organism Scientific: ESCHERICHIA COLI
    Organism Taxid: 634468
    Strain: HB101

 Structural Features

(-) Chains, Units

  12345
Asymmetric/Biological Unit : DEFGH

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 15)

Asymmetric/Biological Unit (4, 15)
No.NameCountTypeFull Name
1GAL3Ligand/IonBETA-D-GALACTOSE
2ME03Mod. Amino AcidHYDROXY-L-METHIONINE
3NA4Ligand/IonSODIUM ION
4SIA5Ligand/IonO-SIALIC ACID

(-) Sites  (9, 9)

Asymmetric Unit (9, 9)
No.NameEvidenceResiduesDescription
1AC1SOFTWARETHR D:13 , ALA D:15BINDING SITE FOR RESIDUE NA D 100
2AC2SOFTWARECYS E:10 , THR E:13 , ALA E:15 , HOH E:2026 , HOH E:2027BINDING SITE FOR RESIDUE NA E 100
3AC3SOFTWARETHR E:13 , THR E:14 , TRP E:92 , HOH E:2113 , HOH E:2115 , HOH E:2116 , HOH E:2117 , ASN F:31 , ASN F:32BINDING SITE FOR RESIDUE SIA E 200
4AC4SOFTWARECYS G:10 , THR G:13 , ALA G:15 , HOH G:2023 , HOH G:2024BINDING SITE FOR RESIDUE NA G 100
5AC5SOFTWARETYR F:55 , ARG G:51 , ALA G:52 , LYS G:53 , ASP G:54 , HOH G:2068 , HOH G:2106 , HOH G:2116 , HOH G:2117 , HOH G:2118 , HOH G:2119 , ILE H:30BINDING SITE FOR RESIDUE SIA G 300
6AC6SOFTWARECYS H:10 , THR H:13 , ALA H:15 , HOH H:2024 , HOH H:2029 , HOH H:2033BINDING SITE FOR RESIDUE NA H 100
7AC7SOFTWARETHR D:13 , THR D:14 , TRP D:92 , HOH D:2029 , HOH D:2139 , HOH D:2140 , HOH D:2141 , HOH D:2142 , HOH D:2143 , ILE E:30 , ASN E:31 , ASN E:32BINDING SITE FOR POLY-SACCHARIDE RESIDUES SIA D 200 THROUGH GAL D 201
8AC8SOFTWARETHR G:13 , THR G:14 , TRP G:92 , HOH G:2025 , HOH G:2106 , HOH G:2107 , HOH G:2109 , HOH G:2111 , HOH G:2112 , HOH G:2113 , HOH G:2114 , ILE H:30 , ASN H:31 , ASN H:32 , ASP H:54 , ASP H:57BINDING SITE FOR POLY-SACCHARIDE RESIDUES SIA G 200 THROUGH GAL G 201
9AC9SOFTWAREILE D:30 , ASN D:31 , ASN D:32 , HOH D:2066 , HOH D:2068 , HOH D:2069 , ARG E:12 , HOH E:2017 , THR H:13 , THR H:14 , TRP H:92 , HOH H:2027 , HOH H:2103 , HOH H:2105 , HOH H:2106 , HOH H:2107 , HOH H:2108 , HOH H:2109 , HOH H:2110BINDING SITE FOR POLY-SACCHARIDE RESIDUES SIA H 200 THROUGH GAL H 201

(-) SS Bonds  (5, 5)

Asymmetric/Biological Unit
No.Residues
1D:10 -D:81
2E:10 -E:81
3F:10 -F:81
4G:10 -G:81
5H:10 -H:81

(-) Cis Peptide Bonds  (10, 10)

Asymmetric/Biological Unit
No.Residues
1Tyr D:55 -Pro D:56
2Ser D:87 -Pro D:88
3Tyr E:55 -Pro E:56
4Ser E:87 -Pro E:88
5Tyr F:55 -Pro F:56
6Ser F:87 -Pro F:88
7Tyr G:55 -Pro G:56
8Ser G:87 -Pro G:88
9Tyr H:55 -Pro H:56
10Ser H:87 -Pro H:88

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5G3L)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5G3L)

(-) Exons   (0, 0)

(no "Exon" information available for 5G3L)

(-) 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 D from PDB  Type:PROTEIN  Length:99
                                                                                                                                  
               SCOP domains --------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhh.....eeeeee.eeeeeee......eeeeee..eeeeee.......hhhhhhhhhhhhhhhhhh...eeeeee.....eeeeeeeee.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------- Transcript
                  5g3l D  1 GASQFFKDNCNRTTASLVEGVELTKYISDINNNTDGMYVVSSTGGVWRISRAKDYPDNVMTAEMRKIAmAAVLSGMRVNMCASPASSPNVIWAIELEAE 99
                                    10        20        30        40        50        60        70        80        90         
                                                                                               69-ME0                          


Chain E from PDB  Type:PROTEIN  Length:99
                                                                                                                                  
               SCOP domains --------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhh.....eeeeee.eeeeeee......eeeeee..eeeeee.......hhhhhhhhhhhhhhhhhh...eeeeee.....eeeeeeeee.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------- Transcript
                  5g3l E  1 GASQFFKDNCNRTTASLVEGVELTKYISDINNNTDGMYVVSSTGGVWRISRAKDYPDNVMTAEMRKIAmAAVLSGMRVNMCASPASSPNVIWAIELEAE 99
                                    10        20        30        40        50        60        70        80        90         
                                                                                               69-ME0                          


Chain F from PDB  Type:PROTEIN  Length:99
                                                                                                                                  
               SCOP domains --------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhh....eeeeee.eeeeeee......eeeeee..eeeeee.......hhhhhhhhhhhhhhhhhh...eeeeee.....eeeeeeeee.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------- Transcript
                  5g3l F  1 GASQFFKDNCNRTTASLVEGVELTKYISDINNNTDGMYVVSSTGGVWRISRAKDYPDNVMTAEMRKIAMAAVLSGMRVNMCASPASSPNVIWAIELEAE 99
                                    10        20        30        40        50        60        70        80        90         


Chain G from PDB  Type:PROTEIN  Length:99
                                                                                                                                  
               SCOP domains --------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhh....eeeeee.eeeeeee......eeeeee..eeeeee.......hhhhhhhhhhhhhhhhhh...eeeeee.....eeeeeeeee.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------- Transcript
                  5g3l G  1 GASQFFKDNCNRTTASLVEGVELTKYISDINNNTDGMYVVSSTGGVWRISRAKDYPDNVMTAEMRKIAMAAVLSGMRVNMCASPASSPNVIWAIELEAE 99
                                    10        20        30        40        50        60        70        80        90         


Chain H from PDB  Type:PROTEIN  Length:99
                                                                                                                                  
               SCOP domains --------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhh....eeeeee.eeeeeee................eeee.......hhhhhhhhhhhhhhhhhh...eeeeee.....eeeeeeeee.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------- Transcript
                  5g3l H  1 GASQFFKDNCNRTTASLVEGVELTKYISDINNNTDGMYVVSSTGGVWRISRAKDYPDNVMTAEMRKIAmAAVLSGMRVNMCASPASSPNVIWAIELEAE 99
                                    10        20        30        40        50        60        70        80        90         
                                                                                               69-ME0
   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 5G3L)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5G3L)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5G3L)

(-) Gene Ontology  (2, 2)

Asymmetric/Biological Unit(hide GO term definitions)

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        E2BB_ECOLX | P43529: 1qb5 1qcb 1tii 4fnf 4fo2 4fp5

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