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(-) Description

Title :  CRYSTAL STRUCTURES OF BBP FROM STAPHYLOCOCCUS AUREUS WITH PEPTIDE LIGAND
 
Authors :  Y. Yu, X. Y. Zhang, J. K. Gu
Date :  08 Jul 15  (Deposition) - 23 Sep 15  (Release) - 21 Oct 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.45
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  A,C  (1x)
Biol. Unit 2:  B,D  (1x)
Keywords :  Bbp, Fibrinogen, Sdr, Mscramm, Staphylococcus Aureus, Protein Binding-Peptide Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  X. Y. Zhang, M. Wu, W. Zhuo, J. K. Gu, S. S. Zhang, J. P. Ge, M. J. Yang
Crystal Structures Of Bbp From Staphylococcus Aureus Reveal The Ligand Binding Mechanism With Fibrinogen Alpha
Protein Cell V. 6 757 2015
PubMed-ID: 26349459  |  Reference-DOI: 10.1007/S13238-015-0205-X

(-) Compounds

Molecule 1 - BONE SIALOPROTEIN-BINDING PROTEIN
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Fragment: UNP RESIDUES 272-598
    Gene: BBP
    Organism Scientific: STAPHYLOCOCCUS AUREUS
    Organism Taxid: 1280
    Synonym: BSP-BINDING PROTEIN
 
Molecule 2 - PEPTIDE FROM FIBRINOGEN ALPHA CHAIN
    Chains: D, C
    Engineered: YES
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synthetic: YES

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit : ABCD
Biological Unit 1 (1x): A C 
Biological Unit 2 (1x):  B D

Summary Information (see also Sequences/Alignments below)

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

Asymmetric Unit (1, 1)
No.NameCountTypeFull Name
1MG1Ligand/IonMAGNESIUM ION
Biological Unit 1 (0, 0)
No.NameCountTypeFull Name
1MG-1Ligand/IonMAGNESIUM ION
Biological Unit 2 (0, 0)
No.NameCountTypeFull Name
1MG-1Ligand/IonMAGNESIUM ION

(-) Sites  (1, 1)

Asymmetric Unit (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLU A:18 , LYS A:21 , ASP A:23 , VAL A:25 , GLU A:32 , HOH A:645binding site for residue MG A 401

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5CFA)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 5CFA)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5CFA)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5CFA)

(-) Exons   (0, 0)

(no "Exon" information available for 5CFA)

(-) 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:326
                                                                                                                                                                                                                                                                                                                                                                      
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhh.eeeeeeeeee......eee.hhh..eeeeeeeee........eeeee....ee............ee.....eeeeeeee....eeeeee.hhhhheeeeeeeeeeeeee........eeeeeeeee..eeeeeeeeee....eee..eeeeeeeeeee....eeeeeeee......eeeeeeeeee.ee.....ee............eeeeee...................ee.hhhheeeeeee..eeeeeeeee...eeeeeeee...hhhhhh...eeeeeeee.....eeeeeeeeeeeee..eeeeeeee.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5cfa A   3 NNVNDLITVTKQMITEGIKDDGVIQAHDGEHIIYTSDFKIDNAVKAGDTMTVKYDKHTIPSDITDDFTPVDITDPSGEVIAKGTFDLNTKTITYKFTDYVDRYENVNAKLELNSYIDKKEVPNETNLNLTFATADKETSKNVKVEYQKPIVKDESNIQSIFSHLDTTKHEVEQTIYVNPLKLNAKNTNVTIKSGGVADNGDYYTGDGSTIIDSNTEIKVYKVASGQQLPQSNKIYDYSQYEDVTNSVTINKNYGTNMANINFGDIDSAYIVKVVSKYTPGAEDDLAVQQGVRMTTTNKYNYSSYAGYTNTILSTTDSGGGDGTVKP 328
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322      


Chain B from PDB  Type:PROTEIN  Length:328
                                                                                                                                                                                                                                                                                                                                                                        
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhh.eeeeeeeeee......eee.hhh..eeeeeeeee........eeeee....ee............ee.....eeeeeeee....eeeeee.hhhhheeeeeeeeeeeeee........eeeeeeeee..eeeeeeeeee....eee..eeeeeeeeeee....eeeeeeee......eeeeeeeeee.ee.....ee............eeeeee...................ee.hhhheeeeeee..eeeeeeeee...eeeeeeee...hhhhhh..eeeeeeeee.....eeeeeeeeeeeee..eeeeeeee.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5cfa B   1 GSNNVNDLITVTKQMITEGIKDDGVIQAHDGEHIIYTSDFKIDNAVKAGDTMTVKYDKHTIPSDITDDFTPVDITDPSGEVIAKGTFDLNTKTITYKFTDYVDRYENVNAKLELNSYIDKKEVPNETNLNLTFATADKETSKNVKVEYQKPIVKDESNIQSIFSHLDTTKHEVEQTIYVNPLKLNAKNTNVTIKSGGVADNGDYYTGDGSTIIDSNTEIKVYKVASGQQLPQSNKIYDYSQYEDVTNSVTINKNYGTNMANINFGDIDSAYIVKVVSKYTPGAEDDLAVQQGVRMTTTNKYNYSSYAGYTNTILSTTDSGGGDGTVKP 328
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320        


Chain C from PDB  Type:PROTEIN  Length:10
                                          
               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
                 5cfa C  26 SKQFTSSTSY  35
                                    35


Chain D from PDB  Type:PROTEIN  Length:8
                                        
               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
                 5cfa D  27 KQFTSSTS  34
   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 5CFA)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5CFA)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5CFA)

(-) Gene Ontology  (65, 66)

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  FIBA_HUMAN | P02671
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 Related Entries

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

UniProtKB/Swiss-Prot
        BBP_STAAU | Q14U76: 5cf3
        FIBA_HUMAN | P02671: 1bbr 1dm4 1fph 1fza 1fzb 1fzc 1fzd 1fze 1fzf 1fzg 1lt9 1ltj 1n86 1n8e 1re3 1re4 1rf0 1rf1 1ycp 2a45 2ffd 2h43 2hlo 2hod 2hpc 2oyh 2oyi 2q9i 2xnx 2xny 2z4e 3at0 3bvh 3e1i 3ghg 3h32 3hus 4f27

(-) Related Entries Specified in the PDB File

5cf3 5CF3 CONTAINS THE SAME PROTEIN WITHOUT PEPTIDE LIGAND