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Supplementary data

Topology of the outer membrane secretin PilQ from Neisseria meningitidis, by S. A. Frye, R. Assalkhou, R. F. Collins, R. C. Ford, C. Petersson, J. P. Derrick and T. Tønjum

Microbiology vol. 152, part 12, pp. 3751 - 3764

A table showing predictions of the C-terminal βstrands for PilQ from N. meningitidis strain M1080 is available here as an Acrobat PDF file.

Fig. S1. Secretin alignment. clustalx (Thompson et al., 1997) alignment of the C-terminal parts of Pseudomonas aeruginosa XcpQ (GenBank accession no. AAG06493) and Neisseria meningitidis strain M1080 PilQ (CAD91899), starting with amino acids 322 and 463, respectively. Predicted β strands for XcpQ (Bitter et al., 1998) and PilQ (Gromiha et al., 1997) are highlighted. The positions of the His-tag insertions in PilQ are marked with arrows indicating the amino acids which are followed by the tags. Identical residues: 23 %; similar residues 41 % (in the alignment shown). The His-tag insertion positions for Mc-656 and Mc-678 are predicted to be located in neighbouring loops.

Fig. S2. Sequence logo presentation of PilQ homologs. The M1080-PilQ sequence was submitted to a blast search and 100 sequences were retrieved (Altschul et al., 1990). Alignment of the sequences was done with clustalx and the result was presented with WebLogo (Crooks et al., 2004; Schneider & Stephens, 1990). Only amino acids aligning to residues 602 to 761 of M1080-PilQ are shown. The positions of the two C-terminal His-tags in Mc-656 and Mc-678 are indicated with yellow triangles. Numbers with an orange background indicate amino acids aligning with amino acids from XcpQ predicted to be in the β strand (Bitter et al., 1998).

References

Altschul, S. F., Gish, W., Miller, W., Myers, E. W. & Lipman, D. J. (1990). Basic local alignment search tool. J Mol Biol 215, 403-410.

Bitter, W., Koster, M., Latijnhouwers, M., de Cock, H. & Tommassen, J. (1998). Formation of oligomeric rings by XcpQ and PilQ, which are involved in protein transport across the outer membrane of Pseudomonas aeruginosa. Mol Microbiol 27, 209-219.

Crooks, G. E., Hon, G., Chandonia, J.-M. & Brenner, S. E. (2004). WebLogo: A Sequence Logo Generator. Genome Res 14, 1188-1190.

Gromiha, M. M., Majumdar, R. & Ponnuswamy, P. K. (1997). Identification of membrane spanning beta strands in bacterial porins. Protein Eng 10, 497-500.

Schneider, T. D. & Stephens, R. M. (1990). Sequence logos: a new way to display consensus sequences. Nucleic Acids Res 18, 6097-6100.

Thompson, J. D., Gibson, T. J., Plewniak, F., Jeanmougin, F. & Higgins, D. G. (1997). The CLUSTAL_X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Res 25, 4876-4882.

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