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(-) Description

Title :  CRYSTAL STRUCTURE OF TCDA-A2 BOUND TO TWO MOLECULES OF A20.1 VHH
 
Authors :  T. Murase, L. Eugenio, M. Schorr, G. Hussack, J. Tanha, E. Kitova, J. S. K K. K. S. Ng
Date :  23 Oct 13  (Deposition) - 11 Dec 13  (Release) - 12 Feb 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.08
Chains :  Asym./Biol. Unit :  A,B,C
Keywords :  Antibody-Antigen Complex, Immune System (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  T. Murase, L. Eugenio, M. Schorr, G. Hussack, J. Tanha, E. N. Kitova, J. S. Klassen, K. K. Ng
Structural Basis For Antibody Recognition In The Receptor-Binding Domains Of Toxins A And B From Clostridium Difficile.
J. Biol. Chem. V. 289 2331 2014
PubMed-ID: 24311789  |  Reference-DOI: 10.1074/JBC.M113.505917

(-) Compounds

Molecule 1 - CELL WALL-BINDING REPEAT PROTEIN
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Fragment: UNP RESIDUES 1-248
    Gene: HMPREF0219_0762, TCDA
    Organism Scientific: CLOSTRIDIUM DIFFICILE
    Organism Taxid: 525258
    Strain: 48489
 
Molecule 2 - A20.1 VHH
    Chains: B, C
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Gene: VHH
    Organism Scientific: LAMA GLAMA
    Organism Taxid: 9844

 Structural Features

(-) Chains, Units

  123
Asymmetric/Biological Unit : ABC

Summary Information (see also Sequences/Alignments below)

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

(no "Ligand,Modified Residues,Ions" information available for 4NBY)

(-) Sites  (0, 0)

(no "Site" information available for 4NBY)

(-) SS Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1B:29 -B:103
2C:29 -C:103

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4NBY)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4NBY)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4NBY)

(-) Exons   (0, 0)

(no "Exon" information available for 4NBY)

(-) 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:248
                                                                                                                                                                                                                                                                                        
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeee..eeee.........eeeee..eeeee.........eeeee..eeeee........eeeee..eeeee...................eeeee..eeeee........eeeee..eeeee.........eeeee..eeeeee..ee..eeeee..eeeeee...........ee.....eeeee..eeeee........eeeee..eeeee..........eeee....eeee........... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4nby A  13 GMRTIDGKKYYFNTTAEAATGWQTIDGKKYYFNTNTSIASTGYTIINDKHFYFNTDGIMQIGVFKGPDGFEYFAPANTDANNIEGQAIRYQNRFLYLHDNIYYFGNNSKAATGWVTIDGRRYYFEPNTAIGANGYKIIDNKNFYFRNGLPQIGVFKGPNGFEYFAPANTDANNIDGQAIRYQNRFLHLLGNIYYFGNNSKAVTGWQTINGNMYYFMPDTAMAAAGGLFEIDGVIYFFGVDGVKAPGIY 261
                                    22   ||   33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253        
                                        26|                                                                                                                                                                                                                                         
                                         28                                                                                                                                                                                                                                         


Chain B from PDB  Type:PROTEIN  Length:123
                                                                                                                                                           
               SCOP domains d4nbyb_ B: automated matches                                                                                                SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeee..eeee....eeeeeeee........eeeeee......eeeeee......eee.......eeeeee....eeeeee...hhhhheeeeeeeee.........eeee...eeeeee. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------- Transcript
                 4nby B   8 QVQLVESGGGLAQAGGSLRLSCAASGRTFSMDPMAWFRQPPGKEREFVAAGSSTGRTTYYADSVKGRFTISRDNAKNTVYLQMNSLKPEDTAVYYCAAAPYGANWYRDEYAYWGQGTQVTVSS 130
                                    17        27        37        47        57        67        77        87        97       107       117       127   


Chain C from PDB  Type:PROTEIN  Length:123
                                                                                                                                                           
               SCOP domains d4nbyc_ C: automated matches                                                                                                SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeee..eeee....eeeeeeee........eeeeee......eeeeee......eee.......eeeeeehhh.eeeeee...hhhhheeeeeeeee.........eeee...eeeeee. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------- Transcript
                 4nby C   8 QVQLVESGGGLAQAGGSLRLSCAASGRTFSMDPMAWFRQPPGKEREFVAAGSSTGRTTYYADSVKGRFTISRDNAKNTVYLQMNSLKPEDTAVYYCAAAPYGANWYRDEYAYWGQGTQVTVSS 130
                                    17        27        37        47        57        67        77        87        97       107       117       127
   Legend:   → Mismatch (orange background)
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    → 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, 2)

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

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4NBY)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4NBY)

(-) Gene Ontology  (0, 0)

Asymmetric/Biological Unit(hide GO term definitions)
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(no "Cis Peptide Bonds" information available for 4nby)
 

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 Related Entries

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

UniProtKB/TrEMBL
        D5RWT1_CLODI | D5RWT1: 4nc0 4nc1

(-) Related Entries Specified in the PDB File

2g7c TCDA-A2 BOUND TO CARBOHYDRATE RECEPTOR
4nbx
4nbz
4nc0
4nc1
4nc2