Thousands of diverse phage and bacterial proteins of 80-140aas with 3-4 TMSs prove to be homologous. They are holin-like and are designated 'Transglycosylase-associated', 'Putative holin' 'Phage-like transmembrane protein', 'YeaQ protein', etc. in the NCBI protein database. Their functions appear to be unknown. They derive from a wide range of bacterial and archaeal phyla including both Gram-negative and Gram-positive bacteria. These proteins are related to the RDD family in CDD (> 15 SD with the GSAT program with 20,000 random shuffles). The RDD (pfam06271) family includes members with these highly conserved residues Arg, Asp and Asp, hence the name. This region contains the first two predicted TMSs of a total of 3 or 4 TMSs. The R is at the N-terminus of the first TMS and the first D is in the middle of this helix. This region of the protein may be involved in the transport of an unknown set of ligands (A Bateman, pers. observation; see CDD). Some members are fused to other domains of recognized function. | ||||

This family belongs to the Holin IV Superfamily . | ||||

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Deutschbauer, A., M.N. Price, K.M. Wetmore, W. Shao, J.K. Baumohl, Z. Xu, M. Nguyen, R. Tamse, R.W. Davis, and A.P. Arkin. (2011). Evidence-based annotation of gene function in Shewanella oneidensis MR-1 using genome-wide fitness profiling across 121 conditions. PLoS Genet 7: e1002385. | ||||

Hug, L.A., B.J. Baker, K. Anantharaman, C.T. Brown, A.J. Probst, C.J. Castelle, C.N. Butterfield, A.W. Hernsdorf, Y. Amano, K. Ise, Y. Suzuki, N. Dudek, D.A. Relman, K.M. Finstad, R. Amundson, B.C. Thomas, and J.F. Banfield. (2016). A new view of the tree of life. Nat Microbiol 1: 16048. | ||||

Examples: | ||||

TC# | Name | Organismal Type | Example | |

1.E.43.1.1 | YeaQ of 82 aas and 3 TMSs | Proteobacteria | YeaQ of | |

1.E.43.1.10 | Putative holin of 83 aas and 3 TMSs | Bacteroidetes | Putative holin of | |

1.E.43.1.11 | Putative transglycosylase-associated holin of 115 aas and 3 TMSs | holin of | ||

1.E.43.1.12 | Transglycosylase, putative holin of 126 aas and 3 TMSs. | Putative holin of | ||

1.E.43.1.13 | Putative holin of 97 aas and 3 TMSs. | Holin of | ||

1.E.43.1.14 | Putative holin of 80 aas and 2 TMSs (Hug | Holin of Candidatus | ||

1.E.43.1.15 | GlsB/YeaQ/YmgE family stress response membrane protein. | UP of | ||

1.E.43.1.16 | Antiholin/holin protein of 135 aas and 3 TMSs. | Putative holin of | ||

1.E.43.1.2 |
Transglycosylase-associated protein of 86 aas and 3 TMSs | Thermobaculum | T-A protein of | |

1.E.43.1.3 |
Putative holin of 144 aas and 4 TMSs | Proteobacteria | Putative holin of | |

1.E.43.1.4 |
Uncharacterized protein of 104 aas and 3 TMSs | Planctomycetes | UP of | |

1.E.43.1.5 | Putative holin of 124 aas and 3 or 4 TMSs. | Proteobacteria | Putative holin of | |

1.E.43.1.6 | Putative holin | Proteobacterial phage | Putative holin of | |

1.E.43.1.7 |
Transglycosylase associated protein of 146 aas and 3 or 4 TMSs | Deinococcus/Thermus | T-A protein of | |

1.E.43.1.8 | Actinobacteria | Uncharacterized protein of | ||

1.E.43.1.9 |
Membrane protein of 82 aas and 3 TMSs | Firmicutes | Membrane protein of | |

Examples: | ||||

TC# | Name | Organismal Type | Example | |

1.E.43.2.1 |
Hypothetical protein of 134 aas and 4 TMSs | Archaea | HP of | |

1.E.43.2.2 |
Hypothetical Protein of 110 aas and 3 TMSs | Archaea | HP of | |

1.E.43.2.3 | Putative holin of 119 aas and 4 TMSs. | Euryarchaea | Putative holin of | |

1.E.43.2.4 | Putative holin of 142 aas and 3 TMSs. | Euryarchaea | putative holin of | |

1.E.43.2.5 | Putative holin of 112 aas and 3 TMSs. | Euryarchaea | Putative holin of | |

1.E.43.2.6 | Putative holin of 124 aas and 4 TMSs. | Crenarchaea | Putative holin of | |

1.E.43.2.7 | Putative holin of 123 aas and 4 TMSs. There appears to be a 2 TMS repeat unit, so that TMSs 1 - 2 are homolous to TMSs 3 - 4. | Putative holin of | ||

1.E.43.2.8 | Uncharacterized protein of 168 aas and 4 TMSs, YckC3. | YckC3 of | ||

1.E.43.2.9 | Putative holin of 103 aas and 3 TMSs. | Putative holin of | ||

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