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PDBsum entry 1zru

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protein ligands Protein-protein interface(s) links
Viral protein PDB id
1zru
Jmol
Contents
Protein chains
253 a.a. *
Ligands
GOL ×6
Waters ×1144
* Residue conservation analysis
PDB id:
1zru
Name: Viral protein
Title: Structure of the lactophage p2 receptor binding protein in c with glycerol
Structure: Lactophage p2 receptor binding protein. Chain: a, b, c. Engineered: yes
Source: Lactococcus lactis phage p2. Organism_taxid: 100641. Gene: orf 18. Expressed in: escherichia coli k12. Expression_system_taxid: 83333.
Biol. unit: Trimer (from PQS)
Resolution:
1.73Å     R-factor:   0.175     R-free:   0.197
Authors: S.Spinelli,D.M.Tremblay,M.Tegoni,S.Blangy,C.Huyghe,A.Desmyte S.Labrie,H.De Haard,S.Moineau,C.Cambillau,Structural Proteo Europe (Spine)
Key ref: D.M.Tremblay et al. (2006). Receptor-binding protein of Lactococcus lactis phages: identification and characterization of the saccharide receptor-binding site. J Bacteriol, 188, 2400-2410. PubMed id: 16547026
Date:
22-May-05     Release date:   28-Mar-06    
PROCHECK
Go to PROCHECK summary
 Headers
 References

Protein chains
Pfam   ArchSchema ?
Q71AW2  (Q71AW2_9CAUD) -  Putative receptor binding protein
Seq:
Struc:
264 a.a.
253 a.a.
Key:    PfamA domain  Secondary structure  CATH domain

 Gene Ontology (GO) functional annotation 
  GO annot!
  Biological process     cell adhesion   3 terms 

 

 
J Bacteriol 188:2400-2410 (2006)
PubMed id: 16547026  
 
 
Receptor-binding protein of Lactococcus lactis phages: identification and characterization of the saccharide receptor-binding site.
D.M.Tremblay, M.Tegoni, S.Spinelli, V.Campanacci, S.Blangy, C.Huyghe, A.Desmyter, S.Labrie, S.Moineau, C.Cambillau.
 
  ABSTRACT  
 
Phage p2, a member of the lactococcal 936 phage species, infects Lactococcus lactis strains by binding initially to specific carbohydrate receptors using its receptor-binding protein (RBP). The structures of p2 RBP, a homotrimeric protein composed of three domains, and of its complex with a neutralizing llama VH domain (VHH5) have been determined (S. Spinelli, A. Desmyter, C. T. Verrips, H. J. de Haard, S. Moineau, and C. Cambillau, Nat. Struct. Mol. Biol. 13:85-89, 2006). Here, we show that VHH5 was able to neutralize 12 of 50 lactococcal phages belonging to the 936 species. Moreover, escape phage mutants no longer neutralized by VHH5 were isolated from 11 of these phages. All of the mutations (but one) cluster in the RBP/VHH5 interaction surface that delineates the receptor-binding area. A glycerol molecule, observed in the 1.7-A resolution structure of RBP, was found to bind tightly (Kd= 0.26 microM) in a crevice located in this area. Other saccharides bind RBP with comparable high affinity. These data prove the saccharidic nature of the bacterial receptor recognized by phage p2 and identify the position of its binding site in the RBP head domain.
 

Literature references that cite this PDB file's key reference

  PubMed id Reference
20351260 G.Sciara, C.Bebeacua, P.Bron, D.Tremblay, M.Ortiz-Lombardia, J.Lichière, M.van Heel, V.Campanacci, S.Moineau, and C.Cambillau (2010).
Structure of lactococcal phage p2 baseplate and its mechanism of activation.
  Proc Natl Acad Sci U S A, 107, 6852-6857.
PDB codes: 2wzp 2x53 2x54 2x5a
20802084 J.E.Samson, and S.Moineau (2010).
Characterization of Lactococcus lactis phage 949 and comparison with other lactococcal phages.
  Appl Environ Microbiol, 76, 6843-6852.  
19740746 D.Veesler, B.Dreier, S.Blangy, J.Lichière, D.Tremblay, S.Moineau, S.Spinelli, M.Tegoni, A.Plückthun, V.Campanacci, and C.Cambillau (2009).
Crystal structure and function of a DARPin neutralizing inhibitor of lactococcal phage TP901-1: comparison of DARPin and camelid VHH binding mode.
  J Biol Chem, 284, 30718-30726.
PDB code: 3hg0
19542338 G.M.Rousseau, and S.Moineau (2009).
Evolution of Lactococcus lactis phages within a cheese factory.
  Appl Environ Microbiol, 75, 5336-5344.  
19047351 M.Siponen, G.Sciara, M.Villion, S.Spinelli, J.Lichière, C.Cambillau, S.Moineau, and V.Campanacci (2009).
Crystal structure of ORF12 from Lactococcus lactis phage p2 identifies a tape measure protein chaperone.
  J Bacteriol, 191, 728-734.
PDB code: 3d8l
19286807 M.Siponen, S.Spinelli, S.Blangy, S.Moineau, C.Cambillau, and V.Campanacci (2009).
Crystal structure of a chimeric receptor binding protein constructed from two lactococcal phages.
  J Bacteriol, 191, 3220-3225.
PDB codes: 3d8m 3da0
18065545 H.Deveau, R.Barrangou, J.E.Garneau, J.Labonté, C.Fremaux, P.Boyaval, D.A.Romero, P.Horvath, and S.Moineau (2008).
Phage response to CRISPR-encoded resistance in Streptococcus thermophilus.
  J Bacteriol, 190, 1390-1400.  
18539805 S.J.Labrie, J.Josephsen, H.Neve, F.K.Vogensen, and S.Moineau (2008).
Morphology, genome sequence, and structural proteome of type phage P335 from Lactococcus lactis.
  Appl Environ Microbiol, 74, 4636-4644.  
17875214 A.Hultberg, D.M.Tremblay, H.de Haard, T.Verrips, S.Moineau, L.Hammarström, and H.Marcotte (2007).
Lactobacillli expressing llama VHH fragments neutralise Lactococcus phages.
  BMC Biotechnol, 7, 58.  
17765600 J.S.Fraser, K.L.Maxwell, and A.R.Davidson (2007).
Immunoglobulin-like domains on bacteriophage: weapons of modest damage?
  Curr Opin Microbiol, 10, 382-387.  
17888113 K.Le Roy, M.Verhaest, A.Rabijns, S.Clerens, A.Van Laere, and W.Van den Ende (2007).
N-glycosylation affects substrate specificity of chicory fructan 1-exohydrolase: evidence for the presence of an inulin binding cleft.
  New Phytol, 176, 317-324.  
17113664 N.K.Petty, T.J.Evans, P.C.Fineran, and G.P.Salmond (2007).
Biotechnological exploitation of bacteriophage research.
  Trends Biotechnol, 25, 7.  
18074396 R.L.Rich, and D.G.Myszka (2007).
Survey of the year 2006 commercial optical biosensor literature.
  J Mol Recognit, 20, 300-366.  
17956421 S.Ostergaard Breum, H.Neve, K.J.Heller, and F.K.Vogensen (2007).
Temperate phages TP901-1 and phiLC3, belonging to the P335 species, apparently use different pathways for DNA injection in Lactococcus lactis subsp. cremoris 3107.
  FEMS Microbiol Lett, 276, 156-164.  
16907729 J.Mahony, H.Deveau, S.Mc Grath, M.Ventura, C.Canchaya, S.Moineau, G.F.Fitzgerald, and D.van Sinderen (2006).
Sequence and comparative genomic analysis of lactococcal bacteriophages jj50, 712 and P008: evolutionary insights into the 936 phage species.
  FEMS Microbiol Lett, 261, 253-261.  
16923877 L.C.Fortier, A.Bransi, and S.Moineau (2006).
Genome sequence and global gene expression of Q54, a new phage species linking the 936 and c2 phage species of Lactococcus lactis.
  J Bacteriol, 188, 6101-6114.  
17001096 M.J.Fogg, P.Alzari, M.Bahar, I.Bertini, J.M.Betton, W.P.Burmeister, C.Cambillau, B.Canard, M.A.Corrondo, M.Carrondo, M.Coll, S.Daenke, O.Dym, M.P.Egloff, F.J.Enguita, A.Geerlof, A.Haouz, T.A.Jones, Q.Ma, S.N.Manicka, M.Migliardi, P.Nordlund, R.J.Owens, Y.Peleg, G.Schneider, R.Schnell, D.I.Stuart, N.Tarbouriech, T.Unge, A.J.Wilkinson, M.Wilmanns, K.S.Wilson, O.Zimhony, and J.M.Grimes (2006).
Application of the use of high-throughput technologies to the determination of protein structures of bacterial and viral pathogens.
  Acta Crystallogr D Biol Crystallogr, 62, 1196-1207.  
16940545 S.Ricagno, V.Campanacci, S.Blangy, S.Spinelli, D.Tremblay, S.Moineau, M.Tegoni, and C.Cambillau (2006).
Crystal structure of the receptor-binding protein head domain from Lactococcus lactis phage bIL170.
  J Virol, 80, 9331-9335.
PDB code: 2fsd
The most recent references are shown first. Citation data come partly from CiteXplore and partly from an automated harvesting procedure. Note that this is likely to be only a partial list as not all journals are covered by either method. However, we are continually building up the citation data so more and more references will be included with time. Where a reference describes a PDB structure, the PDB codes are shown on the right.