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(-) Description

Title :  PILUS-PRESENTED ADHESIN, SPY0125 (CPA), P212121 FORM (ESRF DATA)
 
Authors :  J. A. Pointon, W. D. Smith, G. Saalbach, A. Crow, M. A. Kehoe, M. J. Banfie
Date :  28 Jun 10  (Deposition) - 04 Aug 10  (Release) - 03 Nov 10  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.90
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Cell Adhesion, Gram Positive Pilus, Adhesin, Intramolecular Isopeptide Bond, Internal Thioester (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. A. Pointon, W. D. Smith, G. Saalbach, A. Crow, M. A. Kehoe, M. J. Banfield
A Highly Unusual Thioester Bond In A Pilus Adhesin Is Required For Efficient Host Cell Interaction
J. Biol. Chem. V. 285 33858 2010
PubMed-ID: 20729215  |  Reference-DOI: 10.1074/JBC.M110.149385

(-) Compounds

Molecule 1 - ANCILLARY PROTEIN 1
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET28A
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Fragment: C-TERMINAL DOMAIN, RESIDUES 286-723
    Organism Scientific: STREPTOCOCCUS PYOGENES
    Organism Taxid: 1314
    Other Details: INTERNAL THIOESTER LINKAGE BETWEEN CYS426 AND GLN575. INTRAMOLECULAR ISOPEPTIDE BOND BETWEEN LYS297 AND ASP595. INTRAMOLECULAR ISOPEPTIDE BOND BETWEEN LYS610 AND ASN715.
    Strain: SF370
    Synonym: SPY0125, COLLAGEN BINDING PROTEIN

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (1x): A 
Biological Unit 2 (1x):  B

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 6)

Asymmetric Unit (1, 6)
No.NameCountTypeFull Name
1MSE6Mod. Amino AcidSELENOMETHIONINE
Biological Unit 1 (1, 3)
No.NameCountTypeFull Name
1MSE3Mod. Amino AcidSELENOMETHIONINE
Biological Unit 2 (1, 3)
No.NameCountTypeFull Name
1MSE3Mod. Amino AcidSELENOMETHIONINE

(-) Sites  (0, 0)

(no "Site" information available for 2XIC)

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 2XIC)

(-) 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:422
 aligned with Q8GRA2_STRPY | Q8GRA2 from UniProtKB/TrEMBL  Length:757

    Alignment length:430
                                   299       309       319       329       339       349       359       369       379       389       399       409       419       429       439       449       459       469       479       489       499       509       519       529       539       549       559       569       579       589       599       609       619       629       639       649       659       669       679       689       699       709       719
         Q8GRA2_STRPY   290 TTSVLIRKYAIGDYSKLLEGATLQLTGDNVNSFQARVFSSNDIGERIELSDGTYTLTELNSPAGYSIAEPITFKVEAGKVYTIIDGKQIENPNKEIVEPYSVEAYNDFEEFSVLTTQNYAKFYYAKNKNGSSQVVYCFNADLKSPPDSEDGGKTMTPDFTTGEVKYTHIAGRDLFKYTVKPRDTDPDTFLKHIKKVIEKGYREKGQAIEYSGLTETQLRAATQLAIYYFTDSAELDKDKLKDYHGFGDMNDSTLAVAKILVEYAQDSNPPQLTDLDFFIPNNNKYQSLIGTQWHPEDLVDIIRMEDKKEVIPVTHNLTLRKTVTGLAGDRTKDFHFEIELKNNKQELLSQTVKTDKTNLEFKDGKATINLKHGESLTLQGLPEGYSYLVKETDSEGYKVKVNSQEVANATVSKTGITSDETLAFENNKEP 719
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeeee...........eeeeee.----...eeee.....eeeee..eeeeeeeee..........eeeeee..eeee.----.ee...eee.......eeee...............eeee.....eeeeee.........ee.................eeeee...hhhhh......hhhhhhhhhhhhhhhh.............hhhhhhhhhhhhhhhhhh.....hhhhh...hhhhhhhhhhhhhhhhhhhhhh.........eeeee.......eee.......eeeeeeeee.......eeeeeeeeeee.........eeeeeeee.........ee......ee....eeeeee....eeeeeeee..eeeeeee......eeee..ee....eeeeeee...eeeeeeee... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2xic A 290 TTSVLIRKYAIGDYSKLLEGATLQLTGD----FQARVFSSNDIGERIELSDGTYTLTELNSPAGYSIAEPITFKVEAGKVYTI----QIENPNKEIVEPYSVEAYNDFEEFSVLTTQNYAKFYYAKNKNGSSQVVYCFNADLKSPPDSEDGGKTmTPDFTTGEVKYTHIAGRDLFKYTVKPRDTDPDTFLKHIKKVIEKGYREKGQAIEYSGLTETQLRAATQLAIYYFTDSAELDKDKLKDYHGFGDmNDSTLAVAKILVEYAQDSNPPQLTDLDFFIPNNNKYQSLIGTQWHPEDLVDIIRmEDKKEVIPVTHNLTLRKTVTGLAGDRTKDFHFEIELKNNKQELLSQTVKTDKTNLEFKDGKATINLKHGESLTLQGLPEGYSYLVKETDSEGYKVKVNSQEVANATVSKTGITSDETLAFENNKEP 719
                                   299       309       | -  |    329       339       349       359       369  |    379       389       399       409       419       429       439    |  449       459       469       479       489       499       509       519       529       539       549       559       569       579       589   |   599       609       619       629       639       649       659       669       679       689       699       709       719
                                                     317  322                                               372  377                                                                444-MSE                                                                                       538-MSE                                                593-MSE                                                                                                                          


Chain B from PDB  Type:PROTEIN  Length:425
 aligned with Q8GRA2_STRPY | Q8GRA2 from UniProtKB/TrEMBL  Length:757

    Alignment length:433
                                   297       307       317       327       337       347       357       367       377       387       397       407       417       427       437       447       457       467       477       487       497       507       517       527       537       547       557       567       577       587       597       607       617       627       637       647       657       667       677       687       697       707       717   
         Q8GRA2_STRPY   288 PQTTSVLIRKYAIGDYSKLLEGATLQLTGDNVNSFQARVFSSNDIGERIELSDGTYTLTELNSPAGYSIAEPITFKVEAGKVYTIIDGKQIENPNKEIVEPYSVEAYNDFEEFSVLTTQNYAKFYYAKNKNGSSQVVYCFNADLKSPPDSEDGGKTMTPDFTTGEVKYTHIAGRDLFKYTVKPRDTDPDTFLKHIKKVIEKGYREKGQAIEYSGLTETQLRAATQLAIYYFTDSAELDKDKLKDYHGFGDMNDSTLAVAKILVEYAQDSNPPQLTDLDFFIPNNNKYQSLIGTQWHPEDLVDIIRMEDKKEVIPVTHNLTLRKTVTGLAGDRTKDFHFEIELKNNKQELLSQTVKTDKTNLEFKDGKATINLKHGESLTLQGLPEGYSYLVKETDSEGYKVKVNSQEVANATVSKTGITSDETLAFENNKEPV 720
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) -------------------Cna_B-2xic    B01 B:307-372                                           -------------------Fb_signal-2xicB03 B:396-471                                                 --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains (1)
           Pfam domains (2) -------------------Cna_B-2xic    B02 B:307-372                                           -------------------Fb_signal-2xicB04 B:396-471                                                 --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains (2)
         Sec.struct. author ...eeeeeeeee...........eeeee.----....eeee.....eeeee..eeeeeeeee..........eeeeee..eeee.----.ee...eee.......eeee...............eeee.....eeeeee.........ee.................eeeee...hhhhh......hhhhhhhhhhhhhhhh.............hhhhhhhhhhhhhhhhhh.....hhhhh...hhhhhhhhhhhhhhhhhhhhhh.........eeeee.......eee.......eeeeeeeee........eeeeeeeeee.........eeeeeeee.........eeee....ee....eeeeee....eeeeeee...eeeeeee......eeee..ee....eeeeeee...eeeeeeee.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2xic B 288 PQTTSVLIRKYAIGDYSKLLEGATLQLTG----SFQARVFSSNDIGERIELSDGTYTLTELNSPAGYSIAEPITFKVEAGKVYTI----QIENPNKEIVEPYSVEAYNDFEEFSVLTTQNYAKFYYAKNKNGSSQVVYCFNADLKSPPDSEDGGKTmTPDFTTGEVKYTHIAGRDLFKYTVKPRDTDPDTFLKHIKKVIEKGYREKGQAIEYSGLTETQLRAATQLAIYYFTDSAELDKDKLKDYHGFGDmNDSTLAVAKILVEYAQDSNPPQLTDLDFFIPNNNKYQSLIGTQWHPEDLVDIIRmEDKKEVIPVTHNLTLRKTVTGLAGDRTKDFHFEIELKNNKQELLSQTVKTDKTNLEFKDGKATINLKHGESLTLQGLPEGYSYLVKETDSEGYKVKVNSQEVANATVSKTGITSDETLAFENNKEPV 720
                                   297       307        |-   |   327       337       347       357       367    |  377       387       397       407       417       427       437      |447       457       467       477       487       497       507       517       527       537|      547       557       567       577       587     | 597       607       617       627       637       647       657       667       677       687       697       707       717   
                                                      316  321                                                372  377                                                                444-MSE                                                                                       538-MSE                                                593-MSE
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  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 2XIC)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 2XIC)

(-) Pfam Domains  (2, 4)

Asymmetric Unit
(-)
Clan: Transthyretin (88)
(-)
Clan: no clan defined [family: Fb_signal] (3)

(-) Gene Ontology  (2, 2)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (Q8GRA2_STRPY | Q8GRA2)
cellular component
    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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