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(-) Description

Title :  CRYSTAL STRUCTURE OF A DARPIN IN COMPLEX WITH ORF49 FROM LACTOCOCCAL PHAGE TP901-1
 
Authors :  D. Veesler, B. Dreier, S. Blangy, J. Lichiere, D. Tremblay, S. Moineau, S. Spinelli, M. Tegoni, A. Pluckthun, V. Campanacci, C. Cambillau
Date :  13 May 09  (Deposition) - 08 Sep 09  (Release) - 25 Sep 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.10
Chains :  Asym./Biol. Unit :  A,B,C,D
Keywords :  Protein Binding (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  D. Veesler, B. Dreier, S. Blangy, J. Lichiere, D. Tremblay, S. Moineau S. Spinelli, M. Tegoni, A. Pluckthun, V. Campanacci, C. Cambillau
Crystal Structure And Function Of A Darpin Neutralizing Inhibitor Of Lactococcal Phage Tp901-1: Comparison Of Darpi And Camelid Vhh Binding Mode.
J. Biol. Chem. V. 284 30718 2009
PubMed-ID: 19740746  |  Reference-DOI: 10.1074/JBC.M109.037812

(-) Compounds

Molecule 1 - BASEPLATE PROTEIN
    Chains: A, B, C
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PDEST14
    Expression System Strain: T7 EXPRESS IQ PLYSS
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: BPP, BPPL
    Organism Scientific: LACTOCOCCUS PHAGE TP901-1
    Organism Taxid: 35345
    Synonym: BPP
 
Molecule 2 - DESIGNED ANKYRIN REPEAT PROTEIN (DARPIN) 20
    Chains: D
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PDST067
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Organism Scientific: ARTIFICIAL GENE
    Organism Taxid: 32630

 Structural Features

(-) Chains, Units

  1234
Asymmetric/Biological Unit : ABCD

Summary Information (see also Sequences/Alignments below)

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

(no "Ligand,Modified Residues,Ions" information available for 3HG0)

(-) Sites  (0, 0)

(no "Site" information available for 3HG0)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3HG0)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3HG0)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3HG0)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3HG0)

(-) Exons   (0, 0)

(no "Exon" information available for 3HG0)

(-) 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:137
 aligned with Q9G096_9CAUD | Q9G096 from UniProtKB/TrEMBL  Length:163

    Alignment length:137
                                                                                                                                                            163      
                                    42        52        62        72        82        92       102       112       122       132       142       152       162|      
         Q9G096_9CAUD    33 GNVVHKTGDETIAGKKTFTGNVEVNGSLTLPTKSWSGELGGGIILSLRKKGTTVEYSIGGEISSSILANSNLVNRSVPNEFCPRNRCSLVGHMVGGWNAFHIDIPSSGVCQWFGPTASSGTPRGTGTYPID------   -
               SCOP domains ------------------------------d3hg0a1 A:63-169 automated matches                                                                          SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .........eee...eee...eee...ee..eeeeeeeee..eeeeeeee..eeeeeeee.........ee......hhhhh....eeeeeee.....eeeeee......ee.........eeeeeeee........ Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3hg0 A  33 GNVVHKTGDETIAGKKTFTGNVEVNGSLTLPTKSWSGELGGGIILSLRKKGTTVEYSIGGEISSSILANSNLVNRSVPNEFCPRNRCSLVGHMVGGWNAFHIDIPSSGVCQWFGPTASSGTPRGTGTYPIDHHHHHH 169
                                    42        52        62        72        82        92       102       112       122       132       142       152       162       


Chain B from PDB  Type:PROTEIN  Length:130
 aligned with Q9G096_9CAUD | Q9G096 from UniProtKB/TrEMBL  Length:163

    Alignment length:130
                                    43        53        63        73        83        93       103       113       123       133       143       153       163
         Q9G096_9CAUD    34 NVVHKTGDETIAGKKTFTGNVEVNGSLTLPTKSWSGELGGGIILSLRKKGTTVEYSIGGEISSSILANSNLVNRSVPNEFCPRNRCSLVGHMVGGWNAFHIDIPSSGVCQWFGPTASSGTPRGTGTYPID 163
               SCOP domains -----------------------------d3hg0b1 B:63-163 automated matches                                                                    SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ........eee...eee...eee...ee..eeeeeeeee..eeeeeeee..eeeeeeee.................hhhhh....eeeeeee.....eeeeee......ee.........eeeeeeee.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3hg0 B  34 NVVHKTGDETIAGKKTFTGNVEVNGSLTLPTKSWSGELGGGIILSLRKKGTTVEYSIGGEISSSILANSNLVNRSVPNEFCPRNRCSLVGHMVGGWNAFHIDIPSSGVCQWFGPTASSGTPRGTGTYPID 163
                                    43        53        63        73        83        93       103       113       123       133       143       153       163


Chain C from PDB  Type:PROTEIN  Length:132
 aligned with Q9G096_9CAUD | Q9G096 from UniProtKB/TrEMBL  Length:163

    Alignment length:132
                                    41        51        61        71        81        91       101       111       121       131       141       151       161  
         Q9G096_9CAUD    32 GGNVVHKTGDETIAGKKTFTGNVEVNGSLTLPTKSWSGELGGGIILSLRKKGTTVEYSIGGEISSSILANSNLVNRSVPNEFCPRNRCSLVGHMVGGWNAFHIDIPSSGVCQWFGPTASSGTPRGTGTYPID 163
               SCOP domains d3hg0c1 C:32-62                d3hg0c2 C:63-163 automated matches                                                                    SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..........eee...eee...eee...ee..eeeeeeeee..eeeeeeee..eeeeeeee.................hhhhh....eeeeeee.....eeeeee......ee.........eeeeeeee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3hg0 C  32 GGNVVHKTGDETIAGKKTFTGNVEVNGSLTLPTKSWSGELGGGIILSLRKKGTTVEYSIGGEISSSILANSNLVNRSVPNEFCPRNRCSLVGHMVGGWNAFHIDIPSSGVCQWFGPTASSGTPRGTGTYPID 163
                                    41        51        61        71        81        91       101       111       121       131       141       151       161  


Chain D from PDB  Type:PROTEIN  Length:124
                                                                                                                                                            
               SCOP domains d3hg0d_ D: automated matches                                                                                                 SCOP domains
               CATH domains 3hg0D00 D:12-135  [code=1.25.40.20, no name defined]                                                                         CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhhhhhhh...........hhhhhhhhh.hhhhhhhhhhh............hhhhhhhhhhhhhhhhhhhhh............hhhhhhhhh.hhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------- Transcript
                 3hg0 D  12 SDLGKKLLEAARAGQDDEVRILMANGADVNAEDKVGLTPLHLAAMNDHLEIVEVLLKNGADVNAIDAIGETPLHLVAMYGHLEIVEVLLKHGADVNAQDKFGKTAFDISIDNGNEDLAEILQKL 135
                                    21        31        41        51        61        71        81        91       101       111       121       131
   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  (3, 5)

Asymmetric/Biological Unit
(-)
Class: All beta proteins (24004)
(-)
Class: Alpha and beta proteins (a+b) (23004)

(-) CATH Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Class: Mainly Alpha (13335)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3HG0)

(-) Gene Ontology  (4, 4)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B,C   (Q9G096_9CAUD | Q9G096)
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.
cellular component
    GO:0098025    virus tail, baseplate    Multiprotein component at the distal (head) end of the virus tail to which fibers of tailed viruses may be attached.

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 Related Entries

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

UniProtKB/TrEMBL
        Q9G096_9CAUD | Q9G096: 2f0c 3d8m 3da0 3ejc 3u6x 4hem 4hep 4ios 4v96

(-) Related Entries Specified in the PDB File

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2foc STRUCTURE OF PORCINE PANCREATIC ELASTASE IN 55% DIMETHYLFORMAMIDE
2j8s DRUG EXPORT PATHWAY OF MULTIDRUG EXPORTER ACRB REVEALED BY DARPIN INHIBITORS
2p2c INHIBITION OF CASPASE-2 BY A DESIGNED ANKYRIN REPEAT PROTEIN (DARPIN)
2v5q CRYSTAL STRUCTURE OF WILD-TYPE PLK-1 KINASE DOMAIN IN COMPLEX WITH A SELECTIVE DARPIN