Table 2

In silico analysis of archaeal PilA and non-PilA pilins

SpeciesNo. of sequences containing PilA (Duf1628)No. of FlaFind 1.2 positives (no. with D/no. with E) at −2
PfamNo. of FlaFind 1.2 positives (no. with D/no. with E) at −2Colocalized with putative pilins
Crenarchaeota
    Ignicoccus hospitalis KIN4/I018/3
    Acidianus hospitalis W1013/2
    Thermoproteus neutrophilus (Pyrobaculum neutrophilum V24Sta)1a0/0117/3
    Sulfolobus acidocaldarius DSM 639020/1b
    Sulfolobus solfataricus P2028/0
    Sulfolobus tokodaii strain 7025/1
    Aeropyrum pernix K111/0019/1
    Pyrobaculum aerophilum strain IM2020/2
Euryarchaeota
    Archaeoglobus fulgidus DSM 430411/0019/4c
    Ferroglobus placidus DSM 1064233/0031/6
    Haloarcula marismortui ATCC 4304983/2148/11
    Haloferax volcanii DS2d97/2447/9
    Natronomonas pharaonis DSM 216076/0334/5
    Methanocaldococcus jannaschii DSM 2661019/5
    Methanococcus maripaludis C5016/1
    Methanosarcina mazei Go175/25e18/5
    Methanospirillum hungatei JF-1198/61620/12
    Picrophilus torridus DSM 979009/1
    Pyrococcus furiosus DSM 3638018/1
    Pyrococcus horikoshii OT3023/3
    Thermococcus kodakaraensis KOD1038/0
    Thermoplasma acidophilum DSM 172822/006/2
Nanoarchaeota
    Nanoarchaeum equitans Kin-4-M06/0
Korarchaeota
    “Candidatus Korarchaeum cryptofilum” OPF8012/3
Thaumarchaeota
    Cenarchaeum symbiosum A015/3
    Nitrosopumilus maritimus SCM1010/0
    “Candidatus Caldiarchaeum subterraneum”11/0118/3
    “Candidatus Nitrosoarchaeum limnia” SFB1019/3
  • a Only FlaFind 1.2 positive with the second predicted transmembrane (TM).

  • b Additional putative motif with −2K/R predicted for one of these proteins.

  • c Additional putative motif with −2K/R predicted for two of these proteins.

  • d Hvo_0308 is FlaFind 1.2 positive after reannotation.

  • e One gene is colocalized with a pilB homologue.