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(-) Description

Title :  STRUCTURE OF LACTOCOCCAL BACTERIOPHAGE P2 RECEPTOR BINDING PROTEIN IN COMPLEX WITH A LLAMA VHH DOMAIN
 
Authors :  S. Spinelli, A. Desmyter, C. T. Verrips, H. J. W. Dehaard, S. Moineau, C. Cambillau
Date :  20 May 05  (Deposition) - 02 Nov 05  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.70
Chains :  Asym./Biol. Unit :  A,B,C,D,E,F
Keywords :  Lactococcus Lactis, Phage, Receptor Binding Protein, Llama Antibody, Vhh, Receptor (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  S. Spinelli, A. Desmyter, C. T. Verrips, H. J. W. Dehaard, S. Moineau, C. Cambillau
Lactococcal Bacteriophage P2 Receptor Binding Protein Structure Suggests A Common Ancestor Gene With Bacterial And Mammalian Viruses.
Nat. Struct. Mol. Biol. V. 13 85 2006
PubMed-ID: 16327804  |  Reference-DOI: 10.1038/NSMB1029

(-) Compounds

Molecule 1 - RECEPTOR BINDING PROTEIN
    Chains: A, B, C
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Strain: K12
    Expression System Taxid: 562
    Organism Scientific: LACTOCOCCUS LACTIS PHAGE P2
    Organism Taxid: 100641
 
Molecule 2 - LLAMA IMMUNOGLOBULIN
    Cell: LYMPHOCYTE
    Chains: D, E, F
    Engineered: YES
    Expression System: SACCHAROMYCES CEREVISIAE
    Expression System Taxid: 4932
    Fragment: VHH RECOGNITION DOMAIN, RESIDUES 1-123
    Organism Common: LLAMA
    Organism Scientific: LAMA GLAMA
    Organism Taxid: 9844

 Structural Features

(-) Chains, Units

  123456
Asymmetric/Biological Unit : ABCDEF

Summary Information (see also Sequences/Alignments below)

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

(no "Ligand,Modified Residues,Ions" information available for 2BSE)

(-) Sites  (0, 0)

(no "Site" information available for 2BSE)

(-) SS Bonds  (3, 3)

Asymmetric/Biological Unit
No.Residues
1D:22 -D:96
2E:22 -E:96
3F:22 -F:96

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 2BSE)

(-) 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:107
 aligned with RBP_BPLP2 | Q71AW2 from UniProtKB/Swiss-Prot  Length:264

    Alignment length:107
                                   167       177       187       197       207       217       227       237       247       257       
            RBP_BPLP2   158 SIDVPVQTLTVEAGNGLQLQLTKKNNDLVIVRFFGSVSNIQKGWNMSGTWVDRPFRPAAVQSLVGHFAGRDTSFHIDINPNGSITWWGANIDKTPIATRGNGSYFIK 264
               SCOP domains d2bsea_ A: receptor binding protein, rbp, C-terminal domain                                                 SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eeeeeeeee..eeeeeeee...eeeeeeeeee..............hhhhh....eeeeeee.....eeeeee.....eee.........eeeeeeeeee.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------- Transcript
                 2bse A 158 SIDVPVQTLTVEAGNGLQLQLTKKNNDLVIVRFFGSVSNIQKGWNMSGTWVDRPFRPAAVQSLVGHFAGRDTSFHIDINPNGSITWWGANIDKTPIATRGNGSYFIK 264
                                   167       177       187       197       207       217       227       237       247       257       


Chain B from PDB  Type:PROTEIN  Length:107
 aligned with RBP_BPLP2 | Q71AW2 from UniProtKB/Swiss-Prot  Length:264

    Alignment length:107
                                   167       177       187       197       207       217       227       237       247       257       
            RBP_BPLP2   158 SIDVPVQTLTVEAGNGLQLQLTKKNNDLVIVRFFGSVSNIQKGWNMSGTWVDRPFRPAAVQSLVGHFAGRDTSFHIDINPNGSITWWGANIDKTPIATRGNGSYFIK 264
               SCOP domains d2bseb_ B: receptor binding protein, rbp, C-terminal domain                                                 SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eeeeeeeee..eeeeeeee...eeeeeeeeee..............hhhhh....eeeeeee.....eeeeee.....eee.........eeeeeeeeee.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------- Transcript
                 2bse B 158 SIDVPVQTLTVEAGNGLQLQLTKKNNDLVIVRFFGSVSNIQKGWNMSGTWVDRPFRPAAVQSLVGHFAGRDTSFHIDINPNGSITWWGANIDKTPIATRGNGSYFIK 264
                                   167       177       187       197       207       217       227       237       247       257       


Chain C from PDB  Type:PROTEIN  Length:107
 aligned with RBP_BPLP2 | Q71AW2 from UniProtKB/Swiss-Prot  Length:264

    Alignment length:107
                                   167       177       187       197       207       217       227       237       247       257       
            RBP_BPLP2   158 SIDVPVQTLTVEAGNGLQLQLTKKNNDLVIVRFFGSVSNIQKGWNMSGTWVDRPFRPAAVQSLVGHFAGRDTSFHIDINPNGSITWWGANIDKTPIATRGNGSYFIK 264
               SCOP domains d2bsec_ C: receptor binding protein, rbp, C-terminal domain                                                 SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eeeeeeeee..eeeeeeee...eeeeeeeeee..............hhhhh....eeeeeee.....eeeeee.....eee.........eeeeeeeeee.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------- Transcript
                 2bse C 158 SIDVPVQTLTVEAGNGLQLQLTKKNNDLVIVRFFGSVSNIQKGWNMSGTWVDRPFRPAAVQSLVGHFAGRDTSFHIDINPNGSITWWGANIDKTPIATRGNGSYFIK 264
                                   167       177       187       197       207       217       227       237       247       257       


Chain D from PDB  Type:PROTEIN  Length:122
                                                                                                                                                          
               SCOP domains d2bsed_ D: automated matches                                                                                               SCOP domains
               CATH domains 2bseD00 D:2-123 Immunoglobulins                                                                                            CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeee.eeee....eeeeeee.......eeeeeeee.....eeeeeeee....eeee.......eeeee.....eeeeee...hhhhheeeeeeeee...........ee...eeeeee. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------- Transcript
                 2bse D   2 VQLQESGGGLVQAGGSLRLSCTASRRTGSNWCMGWFRQLAGKEPELVVALNFDYDMTYYADSVKGRFTVSRDSGKNTVYLQMNSLKPEDTAIYYCAARSGGFSSNRELYDGWGQGTQVTVSS 123
                                    11        21        31        41        51        61        71        81        91       101       111       121  


Chain E from PDB  Type:PROTEIN  Length:122
                                                                                                                                                          
               SCOP domains d2bsee_ E: automated matches                                                                                               SCOP domains
               CATH domains 2bseE00 E:2-123 Immunoglobulins                                                                                            CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeee.eee....eeeeeeee.......eeeeeeee......eeeeeee....eeee.......eeeee.....eeeeeee.......eeeeeeeee...........ee...eeeee.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------- Transcript
                 2bse E   2 VQLQESGGGLVQAGGSLRLSCTASRRTGSNWCMGWFRQLAGKEPELVVALNFDYDMTYYADSVKGRFTVSRDSGKNTVYLQMNSLKPEDTAIYYCAARSGGFSSNRELYDGWGQGTQVTVSS 123
                                    11        21        31        41        51        61        71        81        91       101       111       121  


Chain F from PDB  Type:PROTEIN  Length:122
                                                                                                                                                          
               SCOP domains d2bsef_ F: automated matches                                                                                               SCOP domains
               CATH domains 2bseF00 F:2-123 Immunoglobulins                                                                                            CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeee.eeee....eeeeeee.......eeeeeeee......eeeeeee....eeee.hhhh..eeeee.....eeeeee...hhhhheeeeeeeee...........ee....eeeee. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------- Transcript
                 2bse F   2 VQLQESGGGLVQAGGSLRLSCTASRRTGSNWCMGWFRQLAGKEPELVVALNFDYDMTYYADSVKGRFTVSRDSGKNTVYLQMNSLKPEDTAIYYCAARSGGFSSNRELYDGWGQGTQVTVSS 123
                                    11        21        31        41        51        61        71        81        91       101       111       121
   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  (2, 6)

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

(-) CATH Domains  (1, 3)

Asymmetric/Biological Unit
(-)
Class: Mainly Beta (13760)

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (3, 3)

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

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UniProtKB/Swiss-Prot
        RBP_BPLP2 | Q71AW2: 1zru 2bsd 2wzp 2x53 3d8m 3da0 4v5i

(-) Related Entries Specified in the PDB File

2bsd STRUCTURE OF LACTOCOCCAL BACTERIOPHAGE P2 RECEPTOR BINDING PROTEIN