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(-) Description

Title :  STRUCTURE OF TCPA, THE TYPE IV PILIN SUBUNIT FROM THE TOXIN CO-REGULATED PILUS OF VIBRIO CHOLERAE CLASSICAL BIOTYPE
 
Authors :  L. Craig, J. A. Tainer
Date :  11 Mar 03  (Deposition) - 03 Jun 03  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.30
Chains :  Asym. Unit :  A,B,C
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Biol. Unit 3:  C  (1x)
Keywords :  Tcpa, Type Iv Pilin, Pilin, Pilus Filament, Vibrio Cholerae, Fiber Forming Protein, Adhesin, Fimbriae, Cell Adhesion (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  L. Craig, R. K. Taylor, M. E. Pique, B. D. Adair, A. S. Arvai, M. Singh, S. J. Lloyd, D. S. Shin, E. D. Getzoff, M. Yeager, K. T. Forest, J. A. Tainer
Type Iv Pilin Structure And Assembly: X-Ray And Em Analyses Of Vibrio Cholerae Toxin-Coregulated Pilus And Pseudomonas Aeruginosa Pak Pilin
Mol. Cell V. 11 1139 2003
PubMed-ID: 12769840  |  Reference-DOI: 10.1016/S1097-2765(03)00170-9

(-) Compounds

Molecule 1 - TOXIN-COREGULATED PILUS SUBUNIT
    Chains: A, B, C
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET-15B
    Expression System Strain: ORIGAMI
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Fragment: GLOBULAR HEAD DOMAIN, RESIDUES 29-199
    Gene: TCPA
    Organism Scientific: VIBRIO CHOLERAE
    Organism Taxid: 666

 Structural Features

(-) Chains, Units

  123
Asymmetric Unit : ABC
Biological Unit 1 (1x): A  
Biological Unit 2 (1x):  B 
Biological Unit 3 (1x):   C

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 3)

Asymmetric Unit (1, 3)
No.NameCountTypeFull Name
1GOL3Ligand/IonGLYCEROL
Biological Unit 1 (1, 1)
No.NameCountTypeFull Name
1GOL1Ligand/IonGLYCEROL
Biological Unit 2 (1, 2)
No.NameCountTypeFull Name
1GOL2Ligand/IonGLYCEROL
Biological Unit 3 (0, 0)
No.NameCountTypeFull Name
1GOL-1Ligand/IonGLYCEROL

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREARG A:52 , GLY A:55 , PHE A:88 , LYS A:106 , GLN A:119 , SER A:199 , HOH A:711 , HOH A:924BINDING SITE FOR RESIDUE GOL A 600
2AC2SOFTWAREHOH A:913 , SER B:353 , ALA B:354 , VAL B:363 , HOH B:672 , HOH B:726BINDING SITE FOR RESIDUE GOL B 601
3AC3SOFTWAREARG B:252 , TYR B:257 , ARG B:300 , LYS B:306 , GLN B:319 , SER B:399 , HOH B:679BINDING SITE FOR RESIDUE GOL B 602

(-) SS Bonds  (3, 3)

Asymmetric Unit
No.Residues
1A:120 -A:186
2B:320 -B:386
3C:520 -C:586

(-) Cis Peptide Bonds  (4, 4)

Asymmetric Unit
No.Residues
1Asp A:29 -Ser A:30
2Ala A:190 -Pro A:191
3Ala B:390 -Pro B:391
4Ala C:590 -Pro C:591

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1OQV)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1OQV)

(-) Exons   (0, 0)

(no "Exon" information available for 1OQV)

(-) 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:171
 aligned with TCPA_VIBCL | P23024 from UniProtKB/Swiss-Prot  Length:224

    Alignment length:171
                                    63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223 
           TCPA_VIBCL    54 DSQIMTKAAQSLNSIQVALTQTYRGLGNYPATADATAASKLTSGLVSLGKISSDEAKNPFNGTNMNIFSFPRNAAANKAFAISVDGLTQAQCKTLITSVGDMFPYIAIKAGGAVALADLGDFENSAAAAETGVGVIKSIAPASKNLDLTNITHVEKLCKGTAPFGVAFGNS 224
               SCOP domains d1oqva_ A: Toxin-coregulated pilus subunit TcpA                                                                                                                             SCOP domains
               CATH domains 1oqvA00 A:29-199 TcpA-like pilin                                                                                                                                            CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhh...hhhhhh........eeeeeee..eeeeeeeeeeeeehhhhhhhhhhhhhhhh.eeeeee....hhhhhh.......hhhhh.eeee............hhhhhhhh......eeeeeee. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1oqv A  29 DSQNMTKAAQSLNSIQVALTQTYRGLGNYPATADATAASKLTSGLVSLGKISSDEAKNPFIGTNMNIFSFPRNAAANKAFAISVDGLTQAQCKTLITSVGDMFPYIAIKAGGAVALADLGDFENSAAAAETGVGVIKSIAPASKNLDLTNITHVEKLCKGTAPFGVAFGNS 199
                                    38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198 


Chain B from PDB  Type:PROTEIN  Length:171
 aligned with TCPA_VIBCL | P23024 from UniProtKB/Swiss-Prot  Length:224

    Alignment length:171
                                    63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223 
           TCPA_VIBCL    54 DSQIMTKAAQSLNSIQVALTQTYRGLGNYPATADATAASKLTSGLVSLGKISSDEAKNPFNGTNMNIFSFPRNAAANKAFAISVDGLTQAQCKTLITSVGDMFPYIAIKAGGAVALADLGDFENSAAAAETGVGVIKSIAPASKNLDLTNITHVEKLCKGTAPFGVAFGNS 224
               SCOP domains d1oqvb_ B: Toxin-coregulated pilus subunit TcpA                                                                                                                             SCOP domains
               CATH domains 1oqvB00 B:229-399 TcpA-like pilin                                                                                                                                           CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhh...hhhhhh........eeeeeee..eeeeeeeeeeeeehhhhhhhhhhhhhhhh.eeeeee....hhhhhh.......hhhhh.eeee............hhhhhhhh......eeeeeee. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1oqv B 229 DSQNMTKAAQSLNSIQVALTQTYRGLGNYPATADATAASKLTSGLVSLGKISSDEAKNPFIGTNMNIFSFPRNAAANKAFAISVDGLTQAQCKTLITSVGDMFPYIAIKAGGAVALADLGDFENSAAAAETGVGVIKSIAPASKNLDLTNITHVEKLCKGTAPFGVAFGNS 399
                                   238       248       258       268       278       288       298       308       318       328       338       348       358       368       378       388       398 


Chain C from PDB  Type:PROTEIN  Length:171
 aligned with TCPA_VIBCL | P23024 from UniProtKB/Swiss-Prot  Length:224

    Alignment length:171
                                    63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223 
           TCPA_VIBCL    54 DSQIMTKAAQSLNSIQVALTQTYRGLGNYPATADATAASKLTSGLVSLGKISSDEAKNPFNGTNMNIFSFPRNAAANKAFAISVDGLTQAQCKTLITSVGDMFPYIAIKAGGAVALADLGDFENSAAAAETGVGVIKSIAPASKNLDLTNITHVEKLCKGTAPFGVAFGNS 224
               SCOP domains d1oqvc_ C: Toxin-coregulated pilus subunit TcpA                                                                                                                             SCOP domains
               CATH domains 1oqvC00 C:429-599 TcpA-like pilin                                                                                                                                           CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhh...hhhhhh........eeeeeee..eeeeeeeeeeeeehhhhhhhhhhhhhhhh.eeeeee....hhhhhh.......hhhhh.eeee............hhhhhhhh......eeeeeee. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1oqv C 429 DSQNMTKAAQSLNSIQVALTQTYRGLGNYPATADATAASKLTSGLVSLGKISSDEAKNPFIGTNMNIFSFPRNAAANKAFAISVDGLTQAQCKTLITSVGDMFPYIAIKAGGAVALADLGDFENSAAAAETGVGVIKSIAPASKNLDLTNITHVEKLCKGTAPFGVAFGNS 599
                                   438       448       458       468       478       488       498       508       518       528       538       548       558       568       578       588       598
   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, 3)

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

(-) CATH Domains  (1, 3)

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

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1OQV)

(-) Gene Ontology  (3, 3)

Asymmetric Unit(hide GO term definitions)
Chain A,B,C   (TCPA_VIBCL | P23024)
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.
cellular component
    GO:0043230    extracellular organelle    Organized structure of distinctive morphology and function, occurring outside the cell. Includes, for example, extracellular membrane vesicles (EMVs) and the cellulosomes of anaerobic bacteria and fungi.
    GO:0009289    pilus    A proteinaceous hair-like appendage on the surface of bacteria ranging from 2-8 nm in diameter.

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 Related Entries

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

UniProtKB/Swiss-Prot
        TCPA_VIBCL | P23024: 1qqz

(-) Related Entries Specified in the PDB File

1dzo TRUNCATED PAK PILIN FROM PSEUDOMONAS AERUGINOSA
1oqw FULL LENGTH PAK PILIN FROM PSEUDOMONAS AERUGINOSA
1or9 MODEL FOR THE ASSEMBLY OF THE TYPE IV PILUS FROM VIBRIO CHOLERAE BASED ON ELECTRON MICROSCOPY AND X-RAY CRYSTALLOGRAPHY
2pil CRYSTALLOGRAPHIC STRUCTURE OF PHOSPHORYLATED PILIN FROM NEISSERIA