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(-) Description

Title :  CRYSTAL STRUCTURE OF A CLEAVED FORM OF A CHIMERIC RECEPTOR BINDING PROTEIN FROM LACTOCOCCAL PHAGES SUBSPECIES TP901-1 AND P2
 
Authors :  M. I. Siponen, S. Blangy, S. Spinelli, L. Vera, C. Cambillau, V. Campana
Date :  28 May 08  (Deposition) - 09 Jun 09  (Release) - 21 Jun 17  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.65
Chains :  Asym./Biol. Unit :  A,B,C
Keywords :  Lactococcal Phage P2, Lactococcal Phage Tp901-1 Receptor Binding Protein, Viral Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. Siponen, S. Spinelli, S. Blangy, S. Moineau, C. Cambillau, V. Campanacci
Crystal Structure Of A Chimeric Receptor Binding Protein Constructed From Two Lactococcal Phages.
J. Bacteriol. V. 191 3220 2009
PubMed-ID: 19286807  |  Reference-DOI: 10.1128/JB.01637-08

(-) Compounds

Molecule 1 - CLEAVED CHIMERIC RECEPTOR BINDING PROTEIN FROM BACTERIOPHAGES TP901-1 AND P2
    Chains: A, B, C
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PDEST17 O/I
    Expression System Strain: C41 PLYSROS
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: BPP, RBP
    Organism Scientific: LACTOCOCCUS PHAGE TP901-1, LACTOCOCCUS PHAGE P2
    Organism Taxid: 35345, 254252

 Structural Features

(-) Chains, Units

  123
Asymmetric/Biological Unit : ABC

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (0, 0)

(no "Ligand,Modified Residues,Ions" information available for 3DA0)

(-) Sites  (0, 0)

(no "Site" information available for 3DA0)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3DA0)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3DA0)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3DA0)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3DA0)

(-) Exons   (0, 0)

(no "Exon" information available for 3DA0)

(-) 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:132
 aligned with RBP_BPLP2 | Q71AW2 from UniProtKB/Swiss-Prot  Length:264

    Alignment length:213
                                    61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261   
            RBP_BPLP2    52 NVQYTNTSIIAGGRYFELLNETVALKGDSVNYIHANIDLTQTANPVSLSAETANNSNGVDINNGSGVLKVCFDIVTTSGTGVTSTKPIVQTSTLDSISVNDMTVSGSIDVPVQTLTVEAGNGLQLQLTKKNNDLVIVRFFGSVSNIQKGWNMSGTWVDRPFRPAAVQSLVGHFAGRDTSFHIDINPNGSITWWGANIDKTPIATRGNGSYFIK 264
               SCOP domains d3da0a1             A:34-62                                                                                   d3da0a2 A:63-165 automated matches                                                                      SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......------------.eee...e------------ee...--------------eee.-------------------------------------------..ee..eeeeeeeee..eeeeeeee...eeeeeeeeee..............hhhhh....eeeeeee.....eeeeee.....eee.........eeeeeeeeee.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3da0 A  34 NVVHKTG------------DETIAGKK------------TFTGN--------------VEVN-------------------------------------------GSLTLPVQTLTVEAGNGLQLQLTKKNNDLVIVRFFGSVSNIQKGWNMSGTWVDRPFRPAAVQSLVGHFAGRDTSFHIDINPNGSITWWGANIDKTPIATRGNGSYFIK 165
                                  |  -        41      |  -        49   |     -        55 |       -         -         -         -     |  62        72        82        92       102       112       122       132       142       152       162   
                                 40           41     48           49  53             54 57                                          58                                                                                                           


Chain B from PDB  Type:PROTEIN  Length:135
 aligned with RBP_BPLP2 | Q71AW2 from UniProtKB/Swiss-Prot  Length:264

    Alignment length:216
                                                                                                                                                                                                                                              264   
                                    61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261  |   
            RBP_BPLP2    52 NVQYTNTSIIAGGRYFELLNETVALKGDSVNYIHANIDLTQTANPVSLSAETANNSNGVDINNGSGVLKVCFDIVTTSGTGVTSTKPIVQTSTLDSISVNDMTVSGSIDVPVQTLTVEAGNGLQLQLTKKNNDLVIVRFFGSVSNIQKGWNMSGTWVDRPFRPAAVQSLVGHFAGRDTSFHIDINPNGSITWWGANIDKTPIATRGNGSYFIK---   -
               SCOP domains d3da0b1             B:34-62                                                                                   d3da0b2 B:63-168 automated matches                                                                         SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .......------------.eee...e------------ee...--------------eee.-------------------------------------------..ee..eeeeeeeee..eeeeeeee...eeeeeeeeee..............hhhhh....eeeeeee.....eeeeee.....eee.........eeeeeeeeee..... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3da0 B  34 NVVHKTG------------DETIAGKK------------TFTGN--------------VEVN-------------------------------------------GSLTLPVQTLTVEAGNGLQLQLTKKNNDLVIVRFFGSVSNIQKGWNMSGTWVDRPFRPAAVQSLVGHFAGRDTSFHIDINPNGSITWWGANIDKTPIATRGNGSYFIKHHH 168
                                  |  -        41      |  -        49   |     -        55 |       -         -         -         -     |  62        72        82        92       102       112       122       132       142       152       162      
                                 40           41     48           49  53             54 57                                          58                                                                                                              


Chain C from PDB  Type:PROTEIN  Length:133
 aligned with RBP_BPLP2 | Q71AW2 from UniProtKB/Swiss-Prot  Length:264

    Alignment length:241
                                    33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263 
            RBP_BPLP2    24 GKLYMMLTGMDYRTIRRKDWSSPLNTALNVQYTNTSIIAGGRYFELLNETVALKGDSVNYIHANIDLTQTANPVSLSAETANNSNGVDINNGSGVLKVCFDIVTTSGTGVTSTKPIVQTSTLDSISVNDMTVSGSIDVPVQTLTVEAGNGLQLQLTKKNNDLVIVRFFGSVSNIQKGWNMSGTWVDRPFRPAAVQSLVGHFAGRDTSFHIDINPNGSITWWGANIDKTPIATRGNGSYFIK 264
               SCOP domains d                           3da0c1             C:33-62                                                                                    d3da0c2 C:63-165 automated matches                                                                      SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .---------------------------.......------------.eee...e------------ee...--------------eee.-------------------------------------------..ee..eeeeeeeee..eeeeeeee...eeeeeeeeee..............hhhhh....eeeeeee.....eeeeee.....eee.........eeeeeeeeee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3da0 C  33 G---------------------------NVVHKTG------------DETIAGKK------------TFTGN--------------VEVN-------------------------------------------GSLTLPVQTLTVEAGNGLQLQLTKKNNDLVIVRFFGSVSNIQKGWNMSGTWVDRPFRPAAVQSLVGHFAGRDTSFHIDINPNGSITWWGANIDKTPIATRGNGSYFIK 165
                            |        -         -        35    |    -       |43    |    -       |51 |       -      | 57         -         -         -         -   |    64        74        84        94       104       114       124       134       144       154       164 
                           33                          34    40           41     48           49  53             54 57                                          58
   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  (2, 6)

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

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3DA0)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3DA0)

(-) Gene Ontology  (4, 7)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B,C   (RBP_BPLP2 | Q71AW2)
biological process
    GO:0007155    cell adhesion    The attachment of a cell, either to another cell or to an underlying substrate such as the extracellular matrix, via cell adhesion molecules.
    GO:0019058    viral life cycle    A set of processes which all viruses follow to ensure survival; includes attachment and entry of the virus particle, decoding of genome information, translation of viral mRNA by host ribosomes, genome replication, and assembly and release of viral particles containing the genome.
    GO:0019062    virion attachment to host cell    The process by which a virion protein binds to molecules on the host cellular surface or host cell surface projection.

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 Related Entries

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

UniProtKB/Swiss-Prot
        RBP_BPLP2 | Q71AW2: 1zru 2bsd 2bse 2wzp 2x53 3d8m 4v5i
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        Q9G096_9CAUD | Q9G096: 2f0c 3d8m 3ejc 3hg0 3u6x 4hem 4hep 4ios 4v96

(-) Related Entries Specified in the PDB File

1zru PHAGE P2 NATIVE PROTEIN IN COMPLEX WITH GLYCEROL
2bsd NATIVE PROTEIN OF HEAD DOMAIN
2bse PHAGE P2 NATIVE PROTEIN IN COMPLEX WITH A LLAMA VHH DOMAIN
2f0c NATIVE PROTEIN OF NECK DOMAIN