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(-) Description

Title :  SALMONELLA ENTERICA SAFA PILIN IN COMPLEX WITH THE SAFB CHAPERONE (TYPE II)
 
Authors :  H. Remaut, R. J. Rose, T. J. Hannan, S. J. Hultgren, S. E. Radford, A. E. As G. Waksman
Date :  25 May 06  (Deposition) - 27 Jun 06  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.80
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Pilus Subunit, Chaperone, Adhesion, Strand Complementation, Pathogenesis, Fibril Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  H. Remaut, R. J. Rose, T. J. Hannan, S. J. Hultgren, S. E. Radford, A. E. Ashcroft, G. Waksman
Donor-Strand Exchange In Chaperone-Assisted Pilus Assembly Proceeds Through A Concerted Beta-Strand Displacement Mechanism
Mol. Cell V. 22 831 2006
PubMed-ID: 16793551  |  Reference-DOI: 10.1016/J.MOLCEL.2006.05.033

(-) Compounds

Molecule 1 - SAFA PILUS SUBUNIT
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PTRC99A
    Expression System Strain: C600
    Expression System Taxid: 562
    Fragment: CORE PILIN DOMAIN, NTE DELETED, RESIDUES 46-170
    Mutation: YES
    Organism Scientific: SALMONELLA TYPHIMURIUM
    Organism Taxid: 99287
    Strain: LT2
 
Molecule 2 - PUTATIVE FIMBRIAE ASSEMBLY CHAPERONE
    Chains: B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PTRC99A
    Expression System Strain: C600
    Expression System Taxid: 562
    Organism Scientific: SALMONELLA TYPHIMURIUM
    Organism Taxid: 99287
    Strain: LT2
    Synonym: SAFB CHAPERONE

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 2)

Asymmetric/Biological Unit (1, 2)
No.NameCountTypeFull Name
1SO42Ligand/IonSULFATE ION

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREPRO A:20 , HOH A:2002 , HOH A:2054 , HOH A:2055 , HOH A:2056 , ARG B:147 , LYS B:156 , GLU B:158BINDING SITE FOR RESIDUE SO4 A1145
2AC2SOFTWARELYS A:55 , PRO A:144 , LYS B:127 , GLU B:181 , TYR B:182 , HOH B:2215 , HOH B:2216 , HOH B:2217 , HOH B:2218BINDING SITE FOR RESIDUE SO4 B1221

(-) SS Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1B:96 -B:125

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2CO7)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2CO7)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2CO7)

(-) Exons   (0, 0)

(no "Exon" information available for 2CO7)

(-) 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:112
 aligned with Q8ZRK4_SALTY | Q8ZRK4 from UniProtKB/TrEMBL  Length:170

    Alignment length:125
                                    55        65        75        85        95       105       115       125       135       145       155       165     
         Q8ZRK4_SALTY    46 PQDLTVSLIPVSGLKAGKNAPSAKIAKLVVNSTTLKEFGVRGISNNVVDSTGTAWRVAGKNTGKEIGVGLSSDSLRRSDSTEKWNGVNWMTFNSNDTLDIVLTGPAQNVTADTYPITLDVVGYQP 170
               SCOP domains d2co7a1 A:2      0-144 SafA pilus subunit                                                                                     SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeeee.------......eeeeeeee.....eeeeeee..ee......eee...------.eeeehhhhhhh..eeeee..eeeeeee...eeeeee......-....eeeeeeeeee.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------- Transcript
                 2co7 A  20 PQDLTVSLIPV------KNAPSAKIAKLVVNSTTLKEFGVRGISNNVVDSTGTAWRVAG------IGVGLSSDSLRRSDSTEKWNGVNWMTFNSNDTLDIVLTGPAQN-TADTYPITLDVVGYQP 144
                                    29|      |39        49        59        69        |-     |  89        99       109       119       129       139     
                                     30     37                                       78     85                                       127 |               
                                                                                                                                       129               


Chain B from PDB  Type:PROTEIN  Length:198
 aligned with Q8ZRK3_SALTY | Q8ZRK3 from UniProtKB/TrEMBL  Length:237

    Alignment length:214
                                    33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233    
         Q8ZRK3_SALTY    24 ATKLFSVKLGATRVIYHAGTAGATLSVSNPQNYPILVQSSVKAADKSSPAPFLVMPPLFRLEANQQSQLRIVRTGGDMPTDRETLQWVCIKAVPPENEPSDTQAKGATLDLNLSINACDKLIFRPDAVKGTPEDVAGNLRWVETGNKLKVENPTPFYMNLASVTVGGKPITGLEYVPPFADKTLNMPGSAHGDIEWRVITDFGGESHPFHYVLK 237
               SCOP domains d2co7b1 B:8-135 Periplasmic chaperone SafB                                                                                      d2co7b2 B:136-221 Periplasmic chaperone SafB                                           SCOP domains
               CATH domains ------2co7B01 B:14-133 PapD-like                                                                                              ---2co7B02 B:137-219  [code=2.60.40.1070, no name defined]                            -- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeee.ee...eeeee.....eeeeee......eeeeeeeee........eeee..eeee....eeeeeeee..........eeeeeeeeee...-----------.eeeeeeeeeeeeeeee......hhhhhhhhheeeee..eeeeee.......eeeeee..ee..........eeeee.-----...eeeee..........eee... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2co7 B   8 ATKLFSVKLGATRVIYHAGTAGATLSVSNPQNYPILVQSSVKAADKSSPAPFLVMPPLFRLEANQQSQLRIVRTGGDMPTDRETLQWVCIKAVPPE-----------TLDLNLSINACDKLIFRPDAVKGTPEDVAGNLRWVETGNKLKVENPTPFYMNLASVTVGGKPITGLEYVPPFADKTLN-----HGDIEWRVITDFGGESHPFHYVLK 221
                                    17        27        37        47        57        67        77        87        97     |   -       117       127       137       147       157       167       177       187    |    -|      207       217    
                                                                                                                         103         115                                                                          192   198
   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  (3, 3)

Asymmetric/Biological Unit
(-)
Class: All beta proteins (24004)

(-) CATH Domains  (2, 2)

Asymmetric/Biological Unit
(-)
Class: Mainly Beta (13760)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2CO7)

(-) Gene Ontology  (5, 5)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (Q8ZRK4_SALTY | Q8ZRK4)

Chain B   (Q8ZRK3_SALTY | Q8ZRK3)
biological process
    GO:0071555    cell wall organization    A process that results in the assembly, arrangement of constituent parts, or disassembly of the cell wall, the rigid or semi-rigid envelope lying outside the cell membrane of plant, fungal and most prokaryotic cells, maintaining their shape and protecting them from osmotic lysis.
    GO:0061077    chaperone-mediated protein folding    The process of inhibiting aggregation and assisting in the covalent and noncovalent assembly of single chain polypeptides or multisubunit complexes into the correct tertiary structure that is dependent on interaction with a chaperone.
    GO:0043711    pilus organization    A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of a pilus, a short filamentous structure on a bacterial cell, flagella-like in structure and generally present in many copies.
cellular component
    GO:0030288    outer membrane-bounded periplasmic space    The region between the inner (cytoplasmic or plasma) membrane and outer membrane of organisms with two membranes such as Gram negative bacteria. These periplasmic spaces are relatively thick and contain a thin peptidoglycan layer (PGL), also referred to as a thin cell wall.
    GO:0042597    periplasmic space    The region between the inner (cytoplasmic) and outer membrane (Gram-negative Bacteria) or cytoplasmic membrane and cell wall (Fungi and Gram-positive Bacteria).

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 Related Entries

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

UniProtKB/TrEMBL
        Q8ZRK3_SALTY | Q8ZRK3: 2co6
        Q8ZRK4_SALTY | Q8ZRK4: 2cny 2cnz 2co1 2co2 2co3 2co4 2co6 3cre 3crf

(-) Related Entries Specified in the PDB File

2cny SALMONELLA ENTERICA SAFA PILIN IN COMPLEX WITH A 19-RESIDUE SAFA NTE PEPTIDE (I15A MUTANT)
2cnz SALMONELLA ENTERICA SAFA PILIN IN COMPLEX WITH A 19-RESIDUE SAFA NTE PEPTIDE (V13A MUTANT)
2co1 SALMONELLA ENTERICA SAFA PILIN IN COMPLEX WITH A 19-RESIDUE SAFA NTE PEPTIDE (F17A MUTANT)
2co2 SALMONELLA ENTERICA SAFA PILIN IN COMPLEX WITH A 19-RESIDUE SAFA NTE PEPTIDE (F3A MUTANT)
2co3 SALMONELLA ENTERICA SAFA PILIN, HEAD-TO-TAIL SWAPPED DIMER OF NTD1 MUTANT
2co4 SALMONELLA ENTERICA SAFA PILIN IN COMPLEX WITH A 19-RESIDUE SAFA NTE PEPTIDE
2co6 SALMONELLA ENTERICA SAFA PILIN IN COMPLEX WITH THE SAFB CHAPERONE (TYPE I)