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(-) Description

Title :  CRYSTAL STRUCTURE OF THE C-TERMINAL DOMAIN OF THE VIBRIO CHOLERAE SOLUBLE COLONIZATION FACTOR TCPF
 
Authors :  L. Craig, S. Kolappan, A. S. W. Yuen
Date :  09 Aug 10  (Deposition) - 20 Apr 11  (Release) - 25 May 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.10
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  A  (2x)
Keywords :  Immunoglobulin-Like Fold, Cell Adhesion (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  C. J. Megli, A. S. Yuen, S. Kolappan, M. R. Richardson, M. N. Dharmasena S. J. Krebs, R. K. Taylor, L. Craig
Crystal Structure Of The Vibrio Cholerae Colonization Facto Tcpf And Identification Of A Functional Immunogenic Site.
J. Mol. Biol. V. 409 146 2011
PubMed-ID: 21440558  |  Reference-DOI: 10.1016/J.JMB.2011.03.027

(-) Compounds

Molecule 1 - TOXIN COREGULATED PILUS BIOSYNTHESIS PROTEIN F
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Fragment: UNP RESIDUES 206-338
    Gene: TCPF, VC_0837
    Organism Scientific: VIBRIO CHOLERAE
    Organism Taxid: 666
    Synonym: TCP PILUS BIOSYNTHESIS PROTEIN TCPF

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit : A
Biological Unit 1 (1x): A
Biological Unit 2 (2x): A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 6)

Asymmetric Unit (3, 6)
No.NameCountTypeFull Name
1DIO1Ligand/Ion1,4-DIETHYLENE DIOXIDE
2GOL3Ligand/IonGLYCEROL
3SO42Ligand/IonSULFATE ION
Biological Unit 1 (3, 6)
No.NameCountTypeFull Name
1DIO1Ligand/Ion1,4-DIETHYLENE DIOXIDE
2GOL3Ligand/IonGLYCEROL
3SO42Ligand/IonSULFATE ION
Biological Unit 2 (3, 12)
No.NameCountTypeFull Name
1DIO2Ligand/Ion1,4-DIETHYLENE DIOXIDE
2GOL6Ligand/IonGLYCEROL
3SO44Ligand/IonSULFATE ION

(-) Sites  (6, 6)

Asymmetric Unit (6, 6)
No.NameEvidenceResiduesDescription
1AC1SOFTWARETYR A:194 , LEU A:263 , LEU A:268BINDING SITE FOR RESIDUE DIO A 401
2AC2SOFTWAREGLU A:252 , ASN A:274 , ASN A:278 , LYS A:281BINDING SITE FOR RESIDUE GOL A 501
3AC3SOFTWAREHOH A:50 , PRO A:238 , TYR A:257 , ASN A:270BINDING SITE FOR RESIDUE GOL A 502
4AC4SOFTWAREHOH A:54 , HOH A:75 , ASN A:261 , ASN A:262 , LEU A:263 , THR A:264BINDING SITE FOR RESIDUE GOL A 503
5AC5SOFTWAREHOH A:73 , THR A:224 , ASN A:225 , LEU A:226BINDING SITE FOR RESIDUE SO4 A 601
6AC6SOFTWARESER A:288 , ASN A:289 , TYR A:292BINDING SITE FOR RESIDUE SO4 A 602

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3OC8)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3OC8)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3OC8)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3OC8)

(-) Exons   (0, 0)

(no "Exon" information available for 3OC8)

(-) Sequences/Alignments

Asymmetric 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:134
 aligned with TCPF_VIBCH | P0C6Q5 from UniProtKB/Swiss-Prot  Length:338

    Alignment length:134
                                   214       224       234       244       254       264       274       284       294       304       314       324       334    
           TCPF_VIBCH   205 NEIYPHIKVYEGTLSRLKPGGAMIAVLEYDVNELSKHGYTNLWDVQFKVLVGVPHAETGVIYDPVYEETVKPYQPSNNLTGKKLYNVSTNDMHNGYKWSNTMFSNSNYKTQILLTKGDGSGVKLYSKAYSENFK 338
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -TcpF-3oc8A01 A:186-317                                                                                                              - Pfam domains
         Sec.struct. author .......................eeeeeeehhhhhhh.......eeeeeeee.............eeeee...........eeeeeee.hhhhh.hhhhhhhh.....eeeeeeee.......ee....hhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3oc8 A 185 MEIYPHIKVYEGTLSRLKPGGAMIAVLEYDVNELSKHGYTNLWDVQFKVLVGVPHAETGVIYDPVYEETVKPYQPSNNLTGKKLYNVSTNDMHNGYKWSNTMFSNSNYKTQILLTKGDGSGVKLYSKAYSENFK 318
                                   194       204       214       224       234       244       254       264       274       284       294       304       314
   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 3OC8)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3OC8)

(-) Pfam Domains  (1, 1)

Asymmetric Unit
(-)
Clan: no clan defined [family: TcpF] (2)
(-)
Family: TcpF (2)
(-)
Vibrio cholerae (2)
1aTcpF-3oc8A01A:186-317

(-) Gene Ontology  (2, 2)

Asymmetric Unit(hide GO term definitions)
Chain A   (TCPF_VIBCH | P0C6Q5)
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: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
        TCPF_VIBCH | P0C6Q5: 3oc5

(-) Related Entries Specified in the PDB File

3oc5 CRYSTAL STRUCTURE ANALYSIS OF TCPF