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(-) Description

Title :  A NOVEL CATALYTIC MOTIF REVEALED BY THE MODEL STRUCTURE OF AMIDE HYDROLYZING ANTIBODY 312D6
 
Authors :  F. Benedetti, F. Berti, K. Brady, A. Colombatti, A. Pauletto, C. Pucillo, N. Thomas
Date :  17 Jul 03  (Deposition) - 15 Aug 03  (Release) - 02 Jan 04  (Revision)
Method :  THEORETICAL MODEL
Resolution :  NOT APPLICABLE
Chains :  Theor. Model :  H,L
Keywords :  Catalytic Antibody, Amide Hydrolysis (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  F. Benedetti, F. Berti, K. Brady, A. Colombatti, A. Pauletto C. Pucillo, N. Thomas
An Unprecedented Catalytic Motif Revealed In The Model Structure Of Amide Hydrolyzing Antibody 312D6
Chembiochem V. 5 129 2004
PubMed: search
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - CATALYTIC ANTIBODY 312D6
    Chains: H
    Organism Common: MOUSE
    Organism Scientific: MUS MUSCULUS
 
Molecule 2 - CATALYTIC ANTIBODY 312D6
    Chains: L
    Organism Common: MOUSE
    Organism Scientific: MUS MUSCULUS
    Other Details: COMPLEX WITH N-(P-TOLENESULFONYL)-INDOLE

 Structural Features

(-) Chains, Units

  
Theoretical Model : 

Summary Information (see also Sequences/Alignments below)

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

Theoretical Model (1, 1)
No.NameCountTypeFull Name
1JCB1Ligand/IonN-(P-TOLUENESULFONYL)-INDOLE

(-) Sites  (1, 1)

Theoretical Model (1, 1)
No.NameEvidenceResiduesDescription
1AC1not definedTRP H:47 , ARG H:50 , LEU H:101 , ARG H:102 , GLU L:27 , TYR L:32 , GLU L:97 , ASP L:98JCB BINDING SITE FOR CHAIN L

(-) SS Bonds  (2, 2)

Theoretical Model
No.Residues
1H:22 -H:96
2L:23 -L:92

(-) Cis Peptide Bonds  (3, 3)

Theoretical Model
No.Residues
1Ser L:7 -Pro L:8
2His L:80 -Pro L:81
3Asp L:98 -Pro L:99

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1OK5)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1OK5)

(-) Exons   (0, 0)

(no "Exon" information available for 1OK5)

(-) Sequences/Alignments

Theoretical Model
   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 H from PDB  Type:PROTEIN  Length:119
                                                                                                                                                       
               SCOP domains ----------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeee...eee.....eeeeeeee.......eeeeeee......eeeeee......eee.hhhh..eeeee......eeeee...hhhhheeeeeeee...............eeee. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------- Transcript
                 1ok5 H   1 QVKLQESGPELVKPGASVKISCKSSGYAFSTSWMSWVKQRPGQGLEWIGRIYPGDGDTNYNGKFRDKATLTADKSSSTAYMQLSSLTSVDSAVYFCARSLLRPENYFDYWGQGTTVTVS 119
                                    10        20        30        40        50        60        70        80        90       100       110         


Chain L from PDB  Type:PROTEIN  Length:112
 aligned with KV3A1_MOUSE | P01654 from UniProtKB/Swiss-Prot  Length:111

    Alignment length:112
                                                                                                                                        111 
                                    10        20        30        40        50        60        70        80        90       100       110| 
          KV3A1_MOUSE     1 DIVLTQSPASLAVSLGQRATISCRASESVDNYGISFMNWFQQKPGQPPKLLIYAASNQGSGVPARFSGSGSGTDFSLNIHPMEEDDTAMYFCQQSKEVPWTFGGGTKLEIK-   -
               SCOP domains ---------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeee..eeee.....eeeeeee....ee..ee.eeeeee......eeee.............eeeeee..eeeeee...hhhhh.eeeeee............eeee.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------- Transcript
                 1ok5 L   1 DIQLTQSPVSLAVSLGQRATISCRASETIDNYGISFMNWFQQKPGQPPKLLIYAAPNQGSGVPARFSGSGSGTDFSLNIHPMEEDDTAMYFCQQSKEDPWTFGGGTKLEIKR 112
                                    10        20        30        40        50        60        70        80        90       100       110
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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  (0, 0)

(no "SCOP Domain" information available for 1OK5)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 1OK5)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1OK5)

(-) Gene Ontology  (1, 1)

Theoretical Model(hide GO term definitions)
Chain L   (KV3A1_MOUSE | P01654)
molecular function
    GO:0003823    antigen binding    Interacting selectively and non-covalently with an antigen, any substance which is capable of inducing a specific immune response and of reacting with the products of that response, the specific antibody or specifically sensitized T-lymphocytes, or both. Binding may counteract the biological activity of the antigen.

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  1ok5
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  KV3A1_MOUSE | P01654
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 Related Entries

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

UniProtKB/Swiss-Prot
        KV3A1_MOUSE | P01654: 1mf2 2or9 2orb

(-) Related Entries Specified in the PDB File

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