Structural differences between the Streptococcus agalactiae housekeeping and pilus-specific sortases: SrtA and SrtC1

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Abstract

The assembly of pili on the cell wall of Gram-positive bacteria requires transpeptidase enzymes called sortases. In Streptococcus agalactiae, the PI-1 pilus island of strain 2603V/R encodes two pilus-specific sortases (SrtC1 and SrtC2) and three pilins (GBS80, GBS52 and GBS104). Although either pilus-specific sortase is sufficient for the polymerization of the major pilin, GBS80, incorporation of the minor pilins GBS52 and GBS104 into the pilus structure requires SrtC1 and SrtC2, respectively. The S. agalactiae housekeeping sortase, SrtA, whose gene is present at a different location and does not catalyze pilus polymerization, was shown to be involved in cell wall anchoring of pilus polymers. To understand the structural basis of sortases involved in such diverse functions, we determined the crystal structures of S. agalactiae SrtC1 and SrtA. Both enzymes are made of an eight-stranded beta-barrel core with variations in their active site architecture. SrtA exhibits a catalytic triad arrangement similar to that in Streptococcus pyogenes SrtA but different from that in Staphylococcus aureus SrtA. In contrast, the SrtC1 enzyme contains an N-terminal helical domain and a 'lid' in its putative active site, which is similar to that seen in Streptococcus pneumoniae pilus-specific sortases, although with subtle differences in positioning and composition. To understand the effect of such differences on substrate recognition, we have also determined the crystal structure of a SrtC1 mutant, in which the conserved DP(W/F/Y) motif was replaced with the sorting signal motif of GBS80, IPNTG. By comparing the structures of WT wild type SrtA and SrtC1 and the 'lid' mutant of SrtC1, we propose that structural elements within the active site and the lid may be important for defining the role of specific sortase in pili biogenesis. © 2011 Khare et al.

Figures

  • Figure 1. The topology and secondary structural elements of GBS Sortase C1. (a) The helices are represented as blue cylinders, b-strands as arrows in pink color and loops as lines in black color (b) Individual GBSSrtC1 is made of an eight-stranded beta-barrel fold and the interface of the dimer present in the asymmetric unit, is formed by the b6 strands. The N- and the C- termini are marked. Helices H1 and H2 flanking the barrel core lie on the opposite sides of the dimer interface. The catalytic residues (C184, R193 and H122) are shown in sticks and the lid region is shown in yellow. doi:10.1371/journal.pone.0022995.g001
  • Figure 2. Similarities between of GBS SrtC1 and SPN SrtC1 (PDB code- 2W1J). (a) In the primary sequence alignment achieved by secondary structural element superposition, the conserved DP(Y/W) motif is highlighted in red, and identical residues in pink color. The secondary structural elements in GBSSrtC1are presented as red boxes for b-strands and blue for helices and loops as black lines and depicted below the sequence. (b) The backbone superposition of GBSSrtC1 (cyan) and SPNSrtC1 (magenta) is shown and the corresponding catalytic residues are depicted as sticks and labeled accordingly. doi:10.1371/journal.pone.0022995.g002
  • Figure 3. The putative active site of GBSSrtC1 with the protecting ‘lid’ (a). Residues 44–55 are seen positioned in the putative binding pocket close to the catalytic residues in one of the molecules of the GBSSrtC1 Type II dimer. Tyr51, Asp49 and Leu47 residues anchor the lid in position. (b) A Stereo view of GBSSrtC1 monomer in surface representation shows an elongated putative active site groove and the ‘lid’ (yellow, sticks) seen occupying the length of the groove. Catalytic residues Cys184 (red), His122 (magenta) and Arg193 (blue) are marked. doi:10.1371/journal.pone.0022995.g003
  • Table 1. The residues forming the hydrophobic pocket and the hydrophobic lid anchor residue in the pilus-specific sortases.
  • Figure 4. The conserved hydrophobic pockets and the covering ‘lid’ regions. (a) The GBSSrtC1 (Type II chain A) active site (pale blue) has the lid (yellow) positioned over the hydrophobic pocket of the putative active site. The residues comprising this pocket are shown in sticks (GBSSrtC1 residues in cyan, labeled in black and SPNSrtC1 residues and labels in magenta; the numbering of the residues is according to the respective structures). A single conformation of SPN Leu191 is shown. The catalytic residues of GBSSrtC1 (sticks) are also shown. (b) Stereo view of the putative active sites of GBSSrtC1 (cyan; lid in yellow), SPNSrtC1 (violet) and AORSrtC1 (orange) looking down toward the hydrophobic pocket. The HB-lid in all three pilus-
  • Figure 6. GBS housekeeping sortase SrtA crystal packing. (a) Two views of the 18 GBSSrtA molecules in the asymmetric unit. The three hexameric rings X (green), Y (blue) and Z (pink) are shown, the X and Y hexamers formi a donut-like oligomer and the third Z hexamer forms another such oligomer with a symmetry-mate (pale pink). The zinc atoms are shown as red spheres. (b) The inter-hexameric dimer of GBSSrtA: showing two zinc coordination sites similar to those observed in zinc binding proteins. Each zinc ion is coordinated by two Glutamic residues donated by the two neighbors and one Histidine residue. The catalytic residues in relation to the zinc coordination sites are identified. doi:10.1371/journal.pone.0022995.g006
  • Figure 7. Comparison of GBSSrtA and other housekeeping sortases. (a) Cartoon representation of GBSSrtA secondary structure; the b-strands are depicted in yellow color, a-helices are in red and loops are in green color. The side chains of catalytic residues Cys184, His118, and Arg192 are represented as sticks. (b) Superposition of the GBSSrtA (green), SPYSrtA (magenta) and SASrtA (orange) catalytic residues and the surrounding contributing regions. doi:10.1371/journal.pone.0022995.g007
  • Figure 8. Comparison of GBSSrtA and GBSSrtC1 structures. (a) The superposition of the GBSSrtA (green) and GBSSrtC1 (cyan) active sites shows the respective catalytic and hydrophobic pocket residues. Corresponding residues in GBSSrtA shows a less conserved pattern of hydrophobic residues between the housekeeping sortase and the pilus-specific sortase. (b) Stereo view of the surface representation of GBSSrtA shows a putative active site groove, different from GBSSrtC1. The catalytic Cys184, His118 and Arg192 are colored yellow, magenta and blue, respectively. doi:10.1371/journal.pone.0022995.g008

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Khare, B., Krishnan, V., Rajashankar, K. R., I-Hsiu, H., Xin, M., Ton-That, H., & Narayana, S. V. (2011). Structural differences between the Streptococcus agalactiae housekeeping and pilus-specific sortases: SrtA and SrtC1. PLoS ONE, 6(8). https://doi.org/10.1371/journal.pone.0022995

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