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(-) Description

Title :  CATALYTIC FRAGMENT OF CHOLIX TOXIN FROM VIBRIO CHOLERAE IN COMPLEX WITH INHIBITOR GP-D
 
Authors :  R. Jorgensen, P. R Edwards, A. R. Merrill
Date :  31 Oct 09  (Deposition) - 27 Oct 10  (Release) - 27 Oct 10  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.29
Chains :  Asym./Biol. Unit :  A
Keywords :  Adp-Ribosyl Transferase, Alpha-Beta Complex, Diphthamide, Transferase, Toxin (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  R. Jorgensen, P. R. Edwards, A. R. Merrill
Structure Function Analysis Of Soluble Inhibitors Of Cholix Toxin From Vibrio Cholerae
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - CHOLIX TOXIN
    Chains: A
    EC Number: 2.4.2.36
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET28+
    Expression System Strain: ER2566
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Fragment: CATALYTIC DOMAIN, RESIDUES 459-665
    Gene: CHXA, TOXA
    Organism Scientific: VIBRIO CHOLERAE
    Organism Taxid: 666
    Strain: TP

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 3)

Asymmetric/Biological Unit (2, 3)
No.NameCountTypeFull Name
1CL1Ligand/IonCHLORIDE ION
2G9D2Ligand/Ion3-(MORPHOLIN-4-YLMETHYL)-1,5-DIHYDRO-6H-[1,2]DIAZEPINO[4,5,6-CD]INDOL-6-ONE

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHOH A:36 , HOH A:221 , HIS A:460 , GLY A:461 , TYR A:493 , VAL A:494 , VAL A:500 , ALA A:501 , TYR A:504 , GLU A:581BINDING SITE FOR RESIDUE G9D A 1
2AC2SOFTWAREHOH A:135 , HOH A:341 , LEU A:449 , GLU A:452 , TYR A:454 , ASN A:550 , VAL A:593BINDING SITE FOR RESIDUE G9D A 635
3AC3SOFTWAREHOH A:10 , ASN A:463 , HIS A:464 , ILE A:507 , ARG A:525BINDING SITE FOR RESIDUE CL A 636

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3KI0)

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Leu A:563 -Pro A:564

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3KI0)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3KI0)

(-) Exons   (0, 0)

(no "Exon" information available for 3KI0)

(-) 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:199
 aligned with CHXA_VIBCL | Q5EK40 from UniProtKB/Swiss-Prot  Length:666

    Alignment length:211
                                   459       469       479       489       499       509       519       529       539       549       559       569       579       589       599       609       619       629       639       649       659 
           CHXA_VIBCL   450 GRSYLPENRAVITPQGVTNWTYQELEATHQALTREGYVFVGYHGTNHVAAQTIVNRIAPVPRGNNTENEEKWGGLYVATHAEVAHGYARIKEGTGEYGLPTRAERDARGVMLRVYIPRASLERFYRTNTPLENAEEHITQVIGHSLPLRNEAFTGPESAGGEDETVIGWDMAIHAVAIPSTIPGNAYEELAIDEEAVAKEQSISTKPPYKE 660
               SCOP domains d     3ki0a_ A: automated matches                                                                                                                                                                                   SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .-----....eee..eee..hhhhhhhhhhhhhhh.eeeeeeeeehhhhhhhhhhh....-------.......eee..hhhhhhh........hhhhh.hhhhhhh..eeeeeeee.hhhh.eee...hhhhhhhhhhhhhh........eeeee......eeeeehhhhhh..eeeeeeee.........hhhhhhhhhhhh....... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3ki0 A 423 G-----SHMAVITPQGVTNWTYQELEATHQALTREGYVFVGYHGTNHVAAQTIVNRIAPV-------NEEKWGGLYVATHAEVAHGYARIKEGTGEYGLPTRAERDARGVMLRVYIPRASLERFYRTNTPLENAEEHITQVIGHSLPLRNEAFTGPESAGGEDETVIGWDMAIHAVAIPSTIPGNAYEELAIDEEAVAKEQSISTKPPYKE 628
                            |     |427       437       447       457       467       477       487       497       507       517       527       537       547       557       567       577       587       597       607       617       627 
                            |   424                                                  477     485                                                                                                                                               
                          423
   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  (0, 0)

(no "CATH Domain" information available for 3KI0)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3KI0)

(-) Gene Ontology  (3, 3)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (CHXA_VIBCL | Q5EK40)
molecular function
    GO:0047286    NAD+-diphthamide ADP-ribosyltransferase activity    Catalysis of the reaction: peptide diphthamide + NAD+ = peptide N-(ADP-D-ribosyl)diphthamide + niacinamide.
    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).

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 Related Entries

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

UniProtKB/Swiss-Prot
        CHXA_VIBCL | Q5EK40: 2q5t 2q6m 3ess 3ki1 3ki2 3ki3 3ki4 3ki5 3ki6 3ki7 3ny6 3q9o

(-) Related Entries Specified in the PDB File

2q5t FULL-LENGTH CHOLIX TOXIN FROM VIBRIO CHOLERAE
2q6m CATALYTIC FRAGMENT OF CHOLIX TOXIN FROM VIBRIO CHOLERAE IN COMPLEX WITH THE PJ34 INHIBITOR
3ess CATALYTIC FRAGMENT OF CHOLIX TOXIN FROM VIBRIO CHOLERAE IN COMPLEX WITH THE 1,8-NAPHTHALIMIDE INHIBITOR
3ki1 CATALYTIC FRAGMENT OF CHOLIX TOXIN FROM VIBRIO CHOLERAE IN COMPLEX WITH INHIBITOR GP-F
3ki2 CATALYTIC FRAGMENT OF CHOLIX TOXIN FROM VIBRIO CHOLERAE IN COMPLEX WITH INHIBITOR GP-G
3ki3 CATALYTIC FRAGMENT OF CHOLIX TOXIN FROM VIBRIO CHOLERAE IN COMPLEX WITH INHIBITOR GP-H
3ki4 CATALYTIC FRAGMENT OF CHOLIX TOXIN FROM VIBRIO CHOLERAE IN COMPLEX WITH INHIBITOR GP-P
3ki5 CATALYTIC FRAGMENT OF CHOLIX TOXIN FROM VIBRIO CHOLERAE IN COMPLEX WITH INHIBITOR GP-M
3ki6 CATALYTIC FRAGMENT OF CHOLIX TOXIN FROM VIBRIO CHOLERAE IN COMPLEX WITH INHIBITOR GP-L
3ki7 CATALYTIC FRAGMENT OF CHOLIX TOXIN FROM VIBRIO CHOLERAE IN COMPLEX WITH INHIBITOR GP-I