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(-) Description

Title :  CRYSTAL STRUCTURES REVEAL THE MULTI-LIGAND BINDING MECHANISM OF THE STAPHYLOCOCCUS AUREUS CLFB
 
Authors :  M. J. Yang, H. Xiang, J. W. Wang, B. Liu, Y. G. Chen, L. Liu, X. M. Deng, Y. Fe
Date :  07 May 12  (Deposition) - 08 Aug 12  (Release) - 08 Aug 12  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.50
Chains :  Asym./Biol. Unit :  A,Q
Keywords :  Dev-Igg Fold, Protein-Peptide Complex, Cell Adhesion, Dermokine, Cell Surface, Cell Adhesion-Cytokine Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  H. Xiang, Y. Feng, J. W. Wang, B. Liu, Y. G. Chen, L. Liu, X. M. Deng, M. J. Yang
Crystal Structures Reveal The Multi-Ligand Binding Mechanis Of Staphylococcus Aureus Clfb
Plos Pathog. V. 8 02751 2012
PubMed-ID: 22719251  |  Reference-DOI: 10.1371/JOURNAL.PPAT.1002751

(-) Compounds

Molecule 1 - CLUMPING FACTOR B
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Fragment: UNP RESIDUES 197-542
    Gene: CLFB, SAR2709
    Organism Scientific: STAPHYLOCOCCUS AUREUS
    Organism Taxid: 282458
    Strain: MRSA252
    Synonym: FIBRINOGEN RECEPTOR B, FIBRINOGEN-BINDING PROTEIN B
 
Molecule 2 - PEPTIDE FROM DERMOKINE
    Chains: Q
    Engineered: YES
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Other Details: THIS SEQUENCE OCCURS NATURALLY IN HUMANS.
    Synonym: EPIDERMIS-SPECIFIC SECRETED PROTEIN SK30/SK89
    Synthetic: YES

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AQ

Summary Information (see also Sequences/Alignments below)

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

Asymmetric/Biological Unit (1, 2)
No.NameCountTypeFull Name
1MG2Ligand/IonMAGNESIUM ION

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREVAL A:219 , ALA A:347BINDING SITE FOR RESIDUE MG A 601
2AC2SOFTWAREVAL A:424 , TYR A:468 , TYR A:470 , ASP A:471 , ASN A:472BINDING SITE FOR RESIDUE MG A 602

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4F20)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4F20)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4F20)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4F20)

(-) Exons   (0, 0)

(no "Exon" information available for 4F20)

(-) 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    
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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:331
                                                                                                                                                                                                                                                                                                                                                                           
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....hhh.eeeeeeee...eehhhhh..eeeeeeeee........eeeee....ee......hhhhh.eeeeeeee.....eeeeeeee....eeeeee.hhhh.....eeeeeeeeee........eeee..eee...ee..eeee................eeeeeeee.......eeeeeeee......eeeeeeeee....hhhhh.ee......eeeeeee.hhhhh............eee.hhhhhh.ee.....eeeeeeeee...eeeeeeeee.......eeeeeeeee........eeeeeeeeeeee..eeeee.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4f20 A 210 AKGTNVNDKVTASDFKLEKTAFDPNQSGNTFMAANFKVTGQVKSGDYFTAKLPDSVTGNGDVDYSNSNNTMPIADIKSTNGDVVAKATYDILTKTYTFVFTDYVNDKENINGQFSLPLFTDRAKAPKSGTYDANINIADEMFDNKITYNYSSPIAGIDKPNGANISSQIIGVDTASGQNTYKQTVFVNPKQRVLGNTWVYIKGYQDKIEESSGKVSATDTKLRIFEVNDTSKLSDSYYADPNDSNLKEVTGEFKDKISYKYDNVASINFGDINKTYVVLVEGHYDNTGKNLKTQVIQENIDPATGKDYSIFGWNNENVVRYGGGSADGDSA 540
                                   219       229       239       249       259       269       279       289       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 


Chain Q from PDB  Type:PROTEIN  Length:11
                                           
               SCOP domains ----------- SCOP domains
               CATH domains ----------- CATH domains
               Pfam domains ----------- Pfam domains
         Sec.struct. author ..eeeeee... Sec.struct. author
                 SAPs(SNPs) ----------- SAPs(SNPs)
                    PROSITE ----------- PROSITE
                 Transcript ----------- Transcript
                 4f20 Q 315 GGSSGSGSNGD 327
                            ||     326 
                          315|         
                           318
   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 4F20)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4F20)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4F20)

(-) Gene Ontology  (7, 8)

Asymmetric/Biological Unit(hide GO term definitions)

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 Related Entries

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

UniProtKB/Swiss-Prot
        CLFB_STAAR | Q6GDH2: 4f1z 4f24 4f27

(-) Related Entries Specified in the PDB File

4f1z THE SAME PROTEIN COMPLEXED WITH CK10.
4f24 THE SAME PROTEIN WITHOUT LIGANDS.
4f27 THE SAME PROTEIN COMPLEXED WITH FIBRINOGEN.