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(-) Description

Title :  CRYSTAL STRUCTURE OF THE CYTOPLASMIC DOMAIN OF SPA40, THE SPECIFICITY SWITCH FOR THE SHIGELLA FLEXNERI TYPE III SECRETION SYSTEM
 
Authors :  J. E. Deane, S. C. Graham, E. P. Mitchell, D. Flot, S. Johnson, S. M. Lea
Date :  08 May 08  (Deposition) - 20 May 08  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.00
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Shigella Flexneri, Specificity Switch, Virulence, Transmembrane, Inner Membrane, Flhb, Yscu, T3Ss, Spa40, Plasmid, Membrane, Type Iii Secretion System, Membrane Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. E. Deane, S. C. Graham, E. P. Mitchell, D. Flot, S. Johnson, S. M. Lea
Crystal Structure Of Spa40, The Specificity Switch For The Shigella Flexneri Type Iii Secretion System
Mol. Microbiol. V. 69 267 2008
PubMed-ID: 18485071  |  Reference-DOI: 10.1111/J.1365-2958.2008.06293.X

(-) Compounds

Molecule 1 - SURFACE PRESENTATION OF ANTIGENS PROTEIN SPAS
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET-28B
    Expression System Strain: B834(DE3)
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Fragment: CYTOPLASMIC DOMAIN, RESIDUES 207-257
    Organism Scientific: SHIGELLA FLEXNERI
    Organism Taxid: 623
    Other Details: A SINGLE CHAIN OF THE CYTOPLASMIC DOMAIN OF SPA40 IS PRESENT, HAVING UNDERGONE AN AUTO-CLEAVAGE EVENT BETWEEN N257 AND P258 TO FORM TWO CHAINS
    Synonym: SPA40 PROTEIN, SPA40
 
Molecule 2 - SURFACE PRESENTATION OF ANTIGENS PROTEIN SPAS
    Chains: B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET-28B
    Expression System Strain: B834(DE3)
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Fragment: CYTOPLASMIC DOMAIN, RESIDUES 258-342
    Organism Scientific: SHIGELLA FLEXNERI
    Organism Taxid: 623
    Other Details: A SINGLE CHAIN OF THE CYTOPLASMIC DOMAIN OF SPA40 IS PRESENT, HAVING UNDERGONE AN AUTO-CLEAVAGE EVENT BETWEEN N257 AND P258 TO FORM TWO CHAINS
    Synonym: SPA40 PROTEIN, SPA40

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

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

(no "Ligand,Modified Residues,Ions" information available for 2VT1)

(-) Sites  (0, 0)

(no "Site" information available for 2VT1)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2VT1)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2VT1)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2VT1)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2VT1)

(-) Exons   (0, 0)

(no "Exon" information available for 2VT1)

(-) 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:21
 aligned with SPAS_SHIFL | P0A1M8 from UniProtKB/Swiss-Prot  Length:342

    Alignment length:21
                                   246       256 
           SPAS_SHIFL   237 IEILSEQTKSDIRNSKLVVMN 257
               SCOP domains d2vt1.1               SCOP domains
               CATH domains --------------------- CATH domains
               Pfam domains --------------------- Pfam domains
         Sec.struct. author ....hhhhhhhhhh..eeee. Sec.struct. author
                 SAPs(SNPs) --------------------- SAPs(SNPs)
                    PROSITE --------------------- PROSITE
                 Transcript --------------------- Transcript
                 2vt1 A 237 IEILSEQTKSDIRNSKLVVMN 257
                                   246       256 


Chain B from PDB  Type:PROTEIN  Length:81
 aligned with SPAS_SHIFL | P0A1M8 from UniProtKB/Swiss-Prot  Length:342

    Alignment length:81
                                   267       277       287       297       307       317       327       337 
           SPAS_SHIFL   258 PTHIAIGIYFNPEIAPAPFISLIETNQCALAVRKYANEVGIPTVRDVKLARKLYKTHTKYSFVDFEHLDEVLRLIVWLEQV 338
               SCOP domains d2vt1.1 A:237-257,B:258-338 Surface presentation of antigens protein SpaS         SCOP domains
               CATH domains --------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) Bac_export_2-2vt1B01 B:258-336                                                 -- Pfam domains (1)
           Pfam domains (2) Bac_export_2-2vt1B02 B:258-336                                                 -- Pfam domains (2)
         Sec.struct. author ...eeeeee.........eeeeeeehhhhhhhhhhhhhh...eeehhhhhhhhhhhh...ee....hhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------- Transcript
                 2vt1 B 258 PTHIAIGIYFNPEIAPAPFISLIETNQCALAVRKYANEVGIPTVRDVKLARKLYKTHTKYSFVDFEHLDEVLRLIVWLEQV 338
                                   267       277       287       297       307       317       327       337
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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 2VT1)

(-) Pfam Domains  (1, 2)

Asymmetric/Biological Unit
(-)
Clan: no clan defined [family: Bac_export_2] (5)

(-) Gene Ontology  (5, 5)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (SPAS_SHIFL | P0A1M8)
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:0009306    protein secretion    The controlled release of proteins from a cell.
cellular component
    GO:0016021    integral component of membrane    The component of a membrane consisting of the gene products and protein complexes having at least some part of their peptide sequence embedded in the hydrophobic region of the membrane.
    GO:0016020    membrane    A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.
    GO:0005886    plasma membrane    The membrane surrounding a cell that separates the cell from its external environment. It consists of a phospholipid bilayer and associated proteins.

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