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(-) Description

Title :  VARIABLE SMALL PROTEIN 1 OF BORRELIA TURICATAE (VSPA OR VSP1)
 
Authors :  C. L. Lawson, B. H. Yung, A. G. Barbour, W. R. Zuckert
Date :  07 Mar 06  (Deposition) - 27 Jun 06  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.70
Chains :  Asym. Unit :  A,B,C,D,E,F,G,H
Biol. Unit 1:  A,B  (1x)
Biol. Unit 2:  C,D  (1x)
Biol. Unit 3:  E,F  (1x)
Biol. Unit 4:  G,H  (1x)
Keywords :  Helical Bundle, Ni(Ii) Binding Sites, Immune System (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  C. L. Lawson, B. H. Yung, A. G. Barbour, W. R. Zuckert
Crystal Structure Of Neurotropism-Associated Variable Surface Protein 1 (Vsp1) Of Borrelia Turicatae.
J. Bacteriol. V. 188 4522 2006
PubMed-ID: 16740958  |  Reference-DOI: 10.1128/JB.00028-06
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - SURFACE PROTEIN VSPA
    ChainsA, B, C, D, E, F, G, H
    EngineeredYES
    Expression SystemESCHERICHIA COLI BL21(DE3)
    Expression System PlasmidPET29B
    Expression System StrainBL21(DE3)
    Expression System Taxid469008
    Expression System Vector TypePLASMID
    FragmentRESIDUES 34-214
    GeneVSP1, VSPA
    Organism ScientificBORRELIA TURICATAE
    Organism Taxid142
    SynonymVARIABLE SURFACE PROTEIN 1

 Structural Features

(-) Chains, Units

  12345678
Asymmetric Unit ABCDEFGH
Biological Unit 1 (1x)AB      
Biological Unit 2 (1x)  CD    
Biological Unit 3 (1x)    EF  
Biological Unit 4 (1x)      GH

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 14)

Asymmetric Unit (1, 14)
No.NameCountTypeFull Name
1NI14Ligand/IonNICKEL (II) ION
Biological Unit 1 (0, 0)
No.NameCountTypeFull Name
1NI-1Ligand/IonNICKEL (II) ION
Biological Unit 2 (0, 0)
No.NameCountTypeFull Name
1NI-1Ligand/IonNICKEL (II) ION
Biological Unit 3 (0, 0)
No.NameCountTypeFull Name
1NI-1Ligand/IonNICKEL (II) ION
Biological Unit 4 (0, 0)
No.NameCountTypeFull Name
1NI-1Ligand/IonNICKEL (II) ION

(-) Sites  (14, 14)

Asymmetric Unit (14, 14)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREHIS D:62 , ASP D:184BINDING SITE FOR RESIDUE NI D 1
02AC2SOFTWAREHIS B:62 , ASP B:184 , HOH B:229BINDING SITE FOR RESIDUE NI B 2
03AC3SOFTWAREHIS C:62 , ASP C:184BINDING SITE FOR RESIDUE NI C 3
04AC4SOFTWAREASP A:150 , ASP B:87 , ASP H:150BINDING SITE FOR RESIDUE NI B 4
05AC5SOFTWAREHIS E:62 , ASP E:184BINDING SITE FOR RESIDUE NI E 5
06AC6SOFTWAREHIS F:62 , ASP F:184BINDING SITE FOR RESIDUE NI F 6
07AC7SOFTWAREHIS A:62 , LYS A:66 , ASP A:184 , HOH A:234BINDING SITE FOR RESIDUE NI A 7
08AC8SOFTWAREASP C:150 , ASP D:87 , HOH D:223 , HOH E:219 , ASP F:150BINDING SITE FOR RESIDUE NI D 8
09AC9SOFTWAREHIS G:62 , LYS G:66 , ASP G:184BINDING SITE FOR RESIDUE NI G 9
10BC1SOFTWAREHIS H:62 , ASP H:184 , HOH H:231BINDING SITE FOR RESIDUE NI H 10
11BC2SOFTWAREASP G:87 , ASP H:150BINDING SITE FOR RESIDUE NI G 11
12BC3SOFTWAREASP E:150 , ASP F:87 , LYS F:90BINDING SITE FOR RESIDUE NI E 12
13BC4SOFTWAREASP G:150 , HOH G:215 , ASP H:87 , HOH H:232BINDING SITE FOR RESIDUE NI H 13
14BC5SOFTWAREASP A:87 , LYS A:90 , ASP B:150BINDING SITE FOR RESIDUE NI A 14

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2GA0)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2GA0)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2GA0)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2GA0)

(-) Exons   (0, 0)

(no "Exon" information available for 2GA0)

(-) 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:164
 aligned with O34000_BORTU | O34000 from UniProtKB/TrEMBL  Length:214

    Alignment length:164
                                    47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197    
         O34000_BORTU    38 VIDLATITKNITDAVAFAKSVKDVHTLVKSIDELAKAIGKKIGANGLETDADKNAKLISGAYSVISAVDTKLASLEKKVGISDDLKGKITTVKNASTSFLTKAKSKTADLGKDDVKDADAKTAIDIADTGAKDKGAEELIKLNTAIDALLTSAEAAVTAAINAL 201
               SCOP domains d2ga0a_ A: automated matches                                                                                                                                         SCOP domains
               CATH domains 2ga0A00 A:38-201  [code=1.20.120.240, no name defined]                                                                                                               CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..eeee..eeee....hhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhh.........hhhhhhhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2ga0 A  38 VIDLATITKNITDAVAFAKSVKDVHTLVKSIDELAKAIGKKIGANGLETDADKNAKLISGAYSVISAVDTKLASLEKKVGISDDLKGKITTVKNASTSFLTKAKSKTADLGKDDVKDADAKTAIDIADTGAKDKGAEELIKLNTAIDALLTSAEAAVTAAINAL 201
                                    47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197    

Chain B from PDB  Type:PROTEIN  Length:164
 aligned with O34000_BORTU | O34000 from UniProtKB/TrEMBL  Length:214

    Alignment length:164
                                    47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197    
         O34000_BORTU    38 VIDLATITKNITDAVAFAKSVKDVHTLVKSIDELAKAIGKKIGANGLETDADKNAKLISGAYSVISAVDTKLASLEKKVGISDDLKGKITTVKNASTSFLTKAKSKTADLGKDDVKDADAKTAIDIADTGAKDKGAEELIKLNTAIDALLTSAEAAVTAAINAL 201
               SCOP domains d2ga0b_ B: automated matches                                                                                                                                         SCOP domains
               CATH domains 2ga0B00 B:38-201  [code=1.20.120.240, no name defined]                                                                                                               CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...eeee..eeee....hhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhh.........hhhhhhhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2ga0 B  38 VIDLATITKNITDAVAFAKSVKDVHTLVKSIDELAKAIGKKIGANGLETDADKNAKLISGAYSVISAVDTKLASLEKKVGISDDLKGKITTVKNASTSFLTKAKSKTADLGKDDVKDADAKTAIDIADTGAKDKGAEELIKLNTAIDALLTSAEAAVTAAINAL 201
                                    47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197    

Chain C from PDB  Type:PROTEIN  Length:164
 aligned with O34000_BORTU | O34000 from UniProtKB/TrEMBL  Length:214

    Alignment length:164
                                    47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197    
         O34000_BORTU    38 VIDLATITKNITDAVAFAKSVKDVHTLVKSIDELAKAIGKKIGANGLETDADKNAKLISGAYSVISAVDTKLASLEKKVGISDDLKGKITTVKNASTSFLTKAKSKTADLGKDDVKDADAKTAIDIADTGAKDKGAEELIKLNTAIDALLTSAEAAVTAAINAL 201
               SCOP domains d2ga0c_ C: automated matches                                                                                                                                         SCOP domains
               CATH domains 2ga0C00 C:38-201  [code=1.20.120.240, no name defined]                                                                                                               CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...eeee..eeee....hhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhh.........hhhhhhhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2ga0 C  38 VIDLATITKNITDAVAFAKSVKDVHTLVKSIDELAKAIGKKIGANGLETDADKNAKLISGAYSVISAVDTKLASLEKKVGISDDLKGKITTVKNASTSFLTKAKSKTADLGKDDVKDADAKTAIDIADTGAKDKGAEELIKLNTAIDALLTSAEAAVTAAINAL 201
                                    47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197    

Chain D from PDB  Type:PROTEIN  Length:164
 aligned with O34000_BORTU | O34000 from UniProtKB/TrEMBL  Length:214

    Alignment length:164
                                    47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197    
         O34000_BORTU    38 VIDLATITKNITDAVAFAKSVKDVHTLVKSIDELAKAIGKKIGANGLETDADKNAKLISGAYSVISAVDTKLASLEKKVGISDDLKGKITTVKNASTSFLTKAKSKTADLGKDDVKDADAKTAIDIADTGAKDKGAEELIKLNTAIDALLTSAEAAVTAAINAL 201
               SCOP domains d2ga0d_ D: automated matches                                                                                                                                         SCOP domains
               CATH domains 2ga0D00 D:38-201  [code=1.20.120.240, no name defined]                                                                                                               CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..eeee..eeee....hhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhh.........hhhhhhhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2ga0 D  38 VIDLATITKNITDAVAFAKSVKDVHTLVKSIDELAKAIGKKIGANGLETDADKNAKLISGAYSVISAVDTKLASLEKKVGISDDLKGKITTVKNASTSFLTKAKSKTADLGKDDVKDADAKTAIDIADTGAKDKGAEELIKLNTAIDALLTSAEAAVTAAINAL 201
                                    47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197    

Chain E from PDB  Type:PROTEIN  Length:164
 aligned with O34000_BORTU | O34000 from UniProtKB/TrEMBL  Length:214

    Alignment length:164
                                    47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197    
         O34000_BORTU    38 VIDLATITKNITDAVAFAKSVKDVHTLVKSIDELAKAIGKKIGANGLETDADKNAKLISGAYSVISAVDTKLASLEKKVGISDDLKGKITTVKNASTSFLTKAKSKTADLGKDDVKDADAKTAIDIADTGAKDKGAEELIKLNTAIDALLTSAEAAVTAAINAL 201
               SCOP domains d2ga0e_ E: automated matches                                                                                                                                         SCOP domains
               CATH domains 2ga0E00 E:38-201  [code=1.20.120.240, no name defined]                                                                                                               CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..eeee..eeee....hhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhh.........hhhhhhhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2ga0 E  38 VIDLATITKNITDAVAFAKSVKDVHTLVKSIDELAKAIGKKIGANGLETDADKNAKLISGAYSVISAVDTKLASLEKKVGISDDLKGKITTVKNASTSFLTKAKSKTADLGKDDVKDADAKTAIDIADTGAKDKGAEELIKLNTAIDALLTSAEAAVTAAINAL 201
                                    47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197    

Chain F from PDB  Type:PROTEIN  Length:164
 aligned with O34000_BORTU | O34000 from UniProtKB/TrEMBL  Length:214

    Alignment length:164
                                    47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197    
         O34000_BORTU    38 VIDLATITKNITDAVAFAKSVKDVHTLVKSIDELAKAIGKKIGANGLETDADKNAKLISGAYSVISAVDTKLASLEKKVGISDDLKGKITTVKNASTSFLTKAKSKTADLGKDDVKDADAKTAIDIADTGAKDKGAEELIKLNTAIDALLTSAEAAVTAAINAL 201
               SCOP domains d2ga0f_ F: automated matches                                                                                                                                         SCOP domains
               CATH domains 2ga0F00 F:38-201  [code=1.20.120.240, no name defined]                                                                                                               CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...eeee..eeee....hhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhh.........hhhhhhhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2ga0 F  38 VIDLATITKNITDAVAFAKSVKDVHTLVKSIDELAKAIGKKIGANGLETDADKNAKLISGAYSVISAVDTKLASLEKKVGISDDLKGKITTVKNASTSFLTKAKSKTADLGKDDVKDADAKTAIDIADTGAKDKGAEELIKLNTAIDALLTSAEAAVTAAINAL 201
                                    47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197    

Chain G from PDB  Type:PROTEIN  Length:164
 aligned with O34000_BORTU | O34000 from UniProtKB/TrEMBL  Length:214

    Alignment length:164
                                    47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197    
         O34000_BORTU    38 VIDLATITKNITDAVAFAKSVKDVHTLVKSIDELAKAIGKKIGANGLETDADKNAKLISGAYSVISAVDTKLASLEKKVGISDDLKGKITTVKNASTSFLTKAKSKTADLGKDDVKDADAKTAIDIADTGAKDKGAEELIKLNTAIDALLTSAEAAVTAAINAL 201
               SCOP domains d2ga0g_ G: automated matches                                                                                                                                         SCOP domains
               CATH domains 2ga0G00 G:38-201  [code=1.20.120.240, no name defined]                                                                                                               CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...eeee..eeee....hhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhh.........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2ga0 G  38 VIDLATITKNITDAVAFAKSVKDVHTLVKSIDELAKAIGKKIGANGLETDADKNAKLISGAYSVISAVDTKLASLEKKVGISDDLKGKITTVKNASTSFLTKAKSKTADLGKDDVKDADAKTAIDIADTGAKDKGAEELIKLNTAIDALLTSAEAAVTAAINAL 201
                                    47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197    

Chain H from PDB  Type:PROTEIN  Length:164
 aligned with O34000_BORTU | O34000 from UniProtKB/TrEMBL  Length:214

    Alignment length:164
                                    47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197    
         O34000_BORTU    38 VIDLATITKNITDAVAFAKSVKDVHTLVKSIDELAKAIGKKIGANGLETDADKNAKLISGAYSVISAVDTKLASLEKKVGISDDLKGKITTVKNASTSFLTKAKSKTADLGKDDVKDADAKTAIDIADTGAKDKGAEELIKLNTAIDALLTSAEAAVTAAINAL 201
               SCOP domains d2ga0h_ H: automated matches                                                                                                                                         SCOP domains
               CATH domains 2ga0H00 H:38-201  [code=1.20.120.240, no name defined]                                                                                                               CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...eeee..eeee....hhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhh.........hhhhhhhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2ga0 H  38 VIDLATITKNITDAVAFAKSVKDVHTLVKSIDELAKAIGKKIGANGLETDADKNAKLISGAYSVISAVDTKLASLEKKVGISDDLKGKITTVKNASTSFLTKAKSKTADLGKDDVKDADAKTAIDIADTGAKDKGAEELIKLNTAIDALLTSAEAAVTAAINAL 201
                                    47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197    

   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, 8)

Asymmetric Unit

(-) CATH Domains  (1, 8)

Asymmetric Unit

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2GA0)

(-) Gene Ontology  (2, 2)

Asymmetric Unit(hide GO term definitions)
Chain A,B,C,D,E,F,G,H   (O34000_BORTU | O34000)
biological process
    GO:0006952    defense response    Reactions, triggered in response to the presence of a foreign body or the occurrence of an injury, which result in restriction of damage to the organism attacked or prevention/recovery from the infection caused by the attack.
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.

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 Related Entries

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

UniProtKB/TrEMBL
        O34000_BORTU | O340001yjg

(-) Related Entries Specified in the PDB File

1yjg 45-202 CONSTRUCT OF VSP1, WAS USED TO SOLVE THE STRUCTURE OF THIS ENTRY BY MOLECULAR REPLACEMENT