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(-) Description

Title :  CRYSTAL STRUCTURE ANALYSIS OF THE MIDDLE DOMAIN OF THE CAF1A USHER
 
Authors :  X. Yu, G. R. Visweswaran, Z. Duck, S. Marupakula, S. Macintyre, S. Knight, A. V. Zavialov
Date :  21 Nov 08  (Deposition) - 16 Dec 08  (Release) - 07 Apr 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.85
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Beta Barrel, Beta Strand Swapping, Cell Membrane, Cell Outer Membrane, Cell Projection, Fimbrium, Membrane, Plasmid, Transmembrane, Transport, Membrane Protein, Protein Transport (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  X. Yu, G. R. Visweswaran, Z. Duck, S. Marupakula, S. Macintyre, S. D. Knight, A. V. Zavialov
Caf1A Usher Possesses A Caf1 Subunit-Like Domain That Is Crucial For Caf1 Fibre Secretion
Biochem. J. V. 418 541 2009
PubMed-ID: 19032149  |  Reference-DOI: 10.1042/BJ20080992
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - F1 CAPSULE-ANCHORING PROTEIN
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PCR-U232-320
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Fragment: USHER MIDDLE DOMAIN, UNP RESIDUES 253-341
    Organism Scientific: YERSINIA PESTIS
    Organism Taxid: 632

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

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

Asymmetric/Biological Unit (1, 1)
No.NameCountTypeFull Name
1CL1Ligand/IonCHLORIDE ION

(-) Sites  (1, 1)

Asymmetric Unit (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHIS A:297 , LYS A:303BINDING SITE FOR RESIDUE CL A 1

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3FCG)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (1, 2)

Asymmetric/Biological Unit (1, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1FIMBRIAL_USHERPS01151 Fimbrial biogenesis outer membrane usher protein signature.CAF1A_YERPE294-304
 		  2A:273-283
B:273-283

(-) Exons   (0, 0)

(no "Exon" information available for 3FCG)

(-) 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:75
 aligned with CAF1A_YERPE | P26949 from UniProtKB/Swiss-Prot  Length:833

    Alignment length:78
                                   269       279       289       299       309       319       329        
          CAF1A_YERPE   260 PYYQWNFAPVVRGIARTQARVEVLRDGYTVSNELVPSGPFELANLPLGGGSGELKVIIHESDGTKQVFTVPYDTPAVA 337
               SCOP domains ------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .eee..eeeeeeeee...eeeeee....eeeeeee..eeeee....---..eeeeeeee.....eeeeeeee...... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ----------------------------------FIMBRIAL_US--------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------ Transcript
                 3fcg A 239 PYYQWNFAPVVRGIARTQARVEVLRDGYTVSNELVPSGPFELANLP---GSGELKVIIHESDGTKQVFTVPYDTPAVA 316
                                   248       258       268       278     | 288       298       308        
                                                                       284 288                            


Chain B from PDB  Type:PROTEIN  Length:71
 aligned with CAF1A_YERPE | P26949 from UniProtKB/Swiss-Prot  Length:833

    Alignment length:77
                                   269       279       289       299       309       319       329       
          CAF1A_YERPE   260 PYYQWNFAPVVRGIARTQARVEVLRDGYTVSNELVPSGPFELANLPLGGGSGELKVIIHESDGTKQVFTVPYDTPAV 336
               SCOP domains ----------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeee..eeeeee...eeeeeee..eeeeeeee..eeeee....------.eeeeee.....eeeeee....... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------FIMBRIAL_US-------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------- Transcript
                 3fcg B 239 PYYQWNFAPVVRGIARTQARVEVLRDGYTVSNELVPSGPFELANLP------ELKVIIHESDGTKQVFTVPYDTPAV 315
                                   248       258       268       278     |   -  |    298       308       
                                                                       284    291
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
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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 3FCG)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (8, 8)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (CAF1A_YERPE | P26949)
molecular function
    GO:0015473    fimbrial usher porin activity    A porin that acts in the assembly of fimbria together with fimbrial chaperone.
    GO:0005215    transporter activity    Enables the directed movement of substances (such as macromolecules, small molecules, ions) into, out of or within a cell, or between cells.
biological process
    GO:0009297    pilus assembly    The assembly of a pilus, a short filamentous structure on a bacterial cell, flagella-like in structure and generally present in many copies. Pili are variously involved in transfer of nucleic acids, adherence to surfaces, and formation of pellicles. Is required for bacterial conjugation, or can play a role in adherence to surfaces (when it is called a fimbrium), and in the formation of pellicles.
    GO:0055085    transmembrane transport    The process in which a solute is transported across a lipid bilayer, from one side of a membrane to the other
    GO:0006810    transport    The directed movement of substances (such as macromolecules, small molecules, ions) or cellular components (such as complexes and organelles) into, out of or within a cell, or between cells, or within a multicellular organism by means of some agent such as a transporter, pore or motor protein.
cellular component
    GO:0009279    cell outer membrane    A lipid bilayer that forms the outermost membrane of the cell envelope; enriched in polysaccharide and protein; the outer leaflet of the membrane contains specific lipopolysaccharide structures.
    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.

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 Related Entries

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

UniProtKB/Swiss-Prot
        CAF1A_YERPE | P26949: 2xet 4b0e 4b0m

(-) Related Entries Specified in the PDB File

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