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(-) Description

Title :  STRUCTURE OF THE ARTT MOTIF Q212A MUTANT C3BOT1 EXOENZYME ( FREE STATE, CRYSTAL FORM II)
 
Authors :  E. A. Stura, J. Menetrey, G. Flatau, P. Boquet, A. Menez
Date :  03 Dec 05  (Deposition) - 27 Feb 07  (Release) - 08 Jun 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.70
Chains :  Asym./Biol. Unit :  X
Keywords :  C3 Exoenzyme, Artt Motif, Bacterial Toxins, Transferase, Glycosyltransferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. Menetrey, G. Flatau, P. Boquet, A. Menez, E. A. Stura
Structural Basis For The Nad-Hydrolysis Mechanism And The Artt-Loop Plasticity Of C3 Exoenzymes.
Protein Sci. V. 17 878 2008
PubMed-ID: 18369192  |  Reference-DOI: 10.1110/PS.073398508
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - MONO-ADP-RIBOSYLTRANSFERASE C3
    Chains: X
    EC Number: 2.4.2.-
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Strain: BL21
    Expression System Taxid: 511693
    Mutation: YES
    Organism Scientific: CLOSTRIDIUM BOTULINUM D BACTERIOPHAGE
    Organism Taxid: 29342
    Synonym: EXOENZYME C3

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : X

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 2)

Asymmetric/Biological Unit (1, 2)
No.NameCountTypeFull Name
1SO42Ligand/IonSULFATE ION

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREARG X:229 , SER X:232 , HOH X:2227 , HOH X:2228BINDING SITE FOR RESIDUE SO4 X1246
2AC2SOFTWARESER X:84 , ASN X:87 , ARG X:91 , HOH X:2229BINDING SITE FOR RESIDUE SO4 X1247

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2C8B)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2C8B)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2C8B)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2C8B)

(-) Exons   (0, 0)

(no "Exon" information available for 2C8B)

(-) 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 X from PDB  Type:PROTEIN  Length:201
 aligned with ARC3_CBDP | P15879 from UniProtKB/Swiss-Prot  Length:251

    Alignment length:201
                                    54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244 
            ARC3_CBDP    45 TYQEFTNIDQAKAWGNAQYKKYGLSKSEKEAIVSYTKSASEINGKLRQNKGVINGFPSNLIKQVELLDKSFNKMKTPENIMLFRGDDPAYLGTEFQNTLLNSNGTINKTAFEKAKAKFLNKDRLEYGYISTSLMNVSQFAGRPIITKFKVAKGSKAGYIDPISAFAGQLEMLLPRHSTYHIDDMRLSSDGKQIIITATMMG 245
               SCOP domains d2c8bx_ X: automated matches                                                                                                                                                                              SCOP domains
               CATH domains 2c8bX00 X:45-245 Toxin ADP-ribosyltransferase; Chain A, domain 1                                                                                                                                          CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......hhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhh.....eeeeeeehhhhhhhhhhh.........hhhhhhhhhhhhh..eeee...eeee...........eeeeeee......ee...........eeee...eeeeeeeeee......eeeeeee.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2c8b X  45 TYQEFTNIDQAKAWGNAQYKKYGLSKSEKEAIVSYTKSASEINGKLRQNKGVINGFPSNLIKQVELLDKSFNKMKTPENIMLFRGDDPAYLGTEFQNTLLNSNGTINKTAFEKAKAKFLNKDRLEYGYISTSLMNVSQFAGRPIITKFKVAKGSKAGYIDPISAFAGALEMLLPRHSTYHIDDMRLSSDGKQIIITATMMG 245
                                    54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244
   Legend:   → Mismatch (orange background)
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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, 1)

Asymmetric/Biological Unit
(-)
Class: Alpha and beta proteins (a+b) (23004)

(-) CATH Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Class: Alpha Beta (26913)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2C8B)

(-) Gene Ontology  (7, 7)

Asymmetric/Biological Unit(hide GO term definitions)
Chain X   (ARC3_CBDP | P15879)
molecular function
    GO:0016740    transferase activity    Catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from one compound (generally regarded as the donor) to another compound (generally regarded as the acceptor). Transferase is the systematic name for any enzyme of EC class 2.
    GO:0016757    transferase activity, transferring glycosyl groups    Catalysis of the transfer of a glycosyl group from one compound (donor) to another (acceptor).
    GO:0016763    transferase activity, transferring pentosyl groups    Catalysis of the transfer of a pentosyl group from one compound (donor) to another (acceptor).
biological process
    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.
    GO:0006471    protein ADP-ribosylation    The transfer, from NAD, of ADP-ribose to protein amino acids.
    GO:0016032    viral process    A multi-organism process in which a virus is a participant. The other participant is the host. Includes infection of a host cell, replication of the viral genome, and assembly of progeny virus particles. In some cases the viral genetic material may integrate into the host genome and only subsequently, under particular circumstances, 'complete' its life cycle.
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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  2c8b
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  2.4.2.-
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 Related Entries

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

UniProtKB/Swiss-Prot
        ARC3_CBDP | P15879: 1g24 1gze 1gzf 1uzi 2a78 2a9k 2bov 2c89 2c8a 2c8c 2c8d 2c8e 2c8f 2c8g 2c8h

(-) Related Entries Specified in the PDB File

1g24 THE CRYSTAL STRUCTURE OF EXOENZYME C3 FROM CLOSTRIDIUMBOTULINUM
1gze STRUCTURE OF THE CLOSTRIDIUM BOTULINUM C3 EXOENZYME (L177C MUTANT)
1gzf STRUCTURE OF THE CLOSTRIDIUM BOTULINUM C3 EXOENZYME (WILD-TYPE) IN COMPLEX WITH NAD
1uzi C3 EXOENZYME FROM CLOSTRIDIUM BOTULINUM, TETRAGONAL FORM
2a78 CRYSTAL STRUCTURE OF THE C3BOT-RALA COMPLEX REVEALS A NOVELTYPE OF ACTION OF A BACTERIAL EXOENZYME
2a9k CRYSTAL STRUCTURE OF THE C3BOT-NAD-RALA COMPLEX REVEALS ANOVEL TYPE OF ACTION OF A BACTERIAL EXOENZYME
2bov MOLECULAR RECOGNITION OF AN ADP-RIBOSYLATING CLOSTRIDIUM BOTULINUM C3 EXOENZYME BY RALA GTPASE
2c89 STRUCTURE OF THE WILD-TYPE C3BOT1 EXOENZYME (FREE STATE, CRYSTAL FORM I)
2c8a STRUCTURE OF THE WILD-TYPE C3BOT1 EXOENZYME (NICOTINAMIDE-BOUND STATE, CRYSTAL FORM I)
2c8c STRUCTURE OF THE ARTT MOTIF Q212A MUTANT C3BOT1 EXOENZYME (NAD-BOUND STATE, CRYSTAL FORM I
2c8d STRUCTURE OF THE ARTT MOTIF Q212A MUTANT C3BOT1 EXOENZYME (FREE STATE, CRYSTAL FORM I)
2c8e STRUCTURE OF THE ARTT MOTIF E214N MUTANT C3BOT1 EXOENZYME (FREE STATE, CRYSTAL FORM III)
2c8f STRUCTURE OF THE ARTT MOTIF E214N MUTANT C3BOT1 EXOENZYME (NAD-BOUND STATE, CRYSTAL FORM III)
2c8g STRUCTURE OF THE PN LOOP Q182A MUTANT C3BOT1 EXOENZYME (FREE STATE, CRYSTAL FORM I)
2c8h STRUCTURE OF THE PN LOOP Q182A MUTANT C3BOT1 EXOENZYME (NAD-BOUND STATE, CRYSTAL FORM I)