Table 4.
Groups of unknown LuxR solos.
| Group | Genomic context of LuxR solo (5′–3′) | Bacterial species | Homology (aa), Invariant amino acids changed |
|---|---|---|---|
| 1 | aroQ, 3-dehydroquinate dehydratase II/geneX, any gene product – luxR solo – tsf, Translation elongation factor Ts (C) – rpoB, RNA polymerase (C) | Roseobacter sp., Phaeobacter sp., Salipiger sp., Jannaschia sp., Roseibacterium sp., Dinoroseobacter sp., Pelagibaca sp., Sagittula sp., Citreicella sp., Roseovarius sp., Ruegeria sp., Oceanibulbus sp., Leisingera sp., Silicibacter sp., Thalassobacter sp., Loktanella sp., Maritimibacter sp., Rhodobacter sp., Defluviimonas sp., Octadecabacter sp., Roseivivax sp., Paracoccus sp., Celeribacter sp., Rubellimicrobium sp., Actibacterium sp. | 58–80% |
| W57Y, Y61F, D70I/G/A, P71V, E178Q | |||
| 2 | CR, crotonyl-CoA reductase – luxR solo – ATPase, helicase, ATP-dependent | Roseovarius sp., Oceanibulbus sp., Roseobacter sp., Ruegeria sp. raiR/raiI homologs of P. gallaeciensis, P. inhibens, L. methylohalidivorans, R. pomeroyi, R. denitrificans, R. litoralis, O. antarcticus and D. shibae are flanked by CR | 44–46% |
| None | |||
| 3 | acdH, acyl coA dehydrogenase (C) – merR, MerR family transcriptional regulator (C) – luxR solo – hp, hypothetical protein – merR, MerR family transcriptional regulator (C) | Roseobacter sp., Sulfitobacter sp., Oceanibulbus sp. | 46–58% |
| W57F, D70S (some proteins) | |||
| 4 | fliG, flagellar motor switch protein (C) – [hp, hypothetical protein (C) – abd, autoinducer binding domain protein (C)] – luxR solo – asl, Adenylosuccinate lyase (C) | Rubellimicrobium sp., Loktanella sp. luxR/luxI homologs of O. antarcticus is flanked by fliG | 53–55% |
| None | |||
| 5 | tk, thymidine kinase (C) – luxR solo – rimO, Ribosomal protein S12p Asp methylthiotransferase (C) | Salpiger sp., Roseivivax sp. | 60–62% |
| Y61E/H, D70W, P71S, W85L/V/I, E178Q | |||
| 6 | fabG2, 3-oxoacyl-[acyl-carrier-protein] reductase (C) – iclR, IclR family transcriptional regulator – luxR solo – [luxR solo] – mrp, ATP binding Mrp protein | Rhizobium sp., Agrobacterium sp., Ensifer sp., Sinorhizobium sp., Shinella sp. | 48–94% |
| 40% (adjacent LuxR solos) | |||
| W57F/L, D70S, P71T W85Y/V/N/H, G113S/F/C/A | |||
| 7 | fliF, flagellar M-ring protein – luxR, LuxR superfamily transcriptinal regulator – luxR solo – hp, hypothetical protein (C) – flhB, flagellar biosynthetic protein (C) | Sinorhizobiumm sp., Mesorhizobium sp., Rhizobium sp., Aquamicrobium sp. | 60–89% |
| W57Y, Y61C/A, D70E, P71E/D | |||
| 8 | nramp, Natural resistance-associated macrophage protein (C) – luxR solo – luxR solo (C) – [t3ss, Type 3 secretion genes (C)] – as, asparagine synthase (C) | B. cenocepacia, B. multivorans, B. ambifaria, B. thailandensis, B. vietnamiensis, B. dolosa | 66–90% |
| 33% (adjacent LuxR solos) | |||
| W57Y/F, Y61F, E178Q | |||
| 9 | geneX, any gene product – luxR solo (C) – hchA, HchA chaperone protein (C) | Pseudomonas sp., Acinetobacter sp., Vibrio sp., Agrobacterium sp., Beijerinckia sp., Comamonas sp., Stenotrophomonas sp., Serratia sp. | 46–98% |
| Y61F/T/S/I, D70A/R/Q/N, P71T/R/D/K | |||
| 10 | HAD, HAD-super family hydrolase – luxR solo – chp, conserved hypothetical protein (C) | P. syringae, P. avellanae, P. viridiflava, P. cichorii | 54–99% |
| None | |||
| 11 | hadH, 3-hydroxyacyl-CoA dehydrogenase (C) – luxR solo – uspG, universal stress protein | S. marcescens, S. liquifaciens, S. plymuthica | 77–97% |
| W57Y | |||
| 12 | geneX, any gene product – luxR solo (C) – as II, anthranilate synthase II (C) – as I, anthranilate synthase I (C) | P. syringae, P. brassicacearum, P. fluorescens | 45–86% |
| None |
(C)-Gene in the complementary strand.