TABLE 1.
Properties of proteins encoded by pNGR234a ORFs that lie between NB5 and NB7
| ORF | Function (EC no.) | Transcriptsa | Location and size (kDa)b | Closest homologuec |
|---|---|---|---|---|
| y4gE | Transposase [fragment?] | 0 | Cytosol, 27.7 | M. loti mll9026 (46%, 58%, 1e−27) |
| y4gF (rmlB) | dTDP-glucose 4,6-dehydratase (4.2.1.46) | 1↑(24) | Cytosol, 39.7 | A. tumefaciens RfbB (81%, 90%, 3e−158) |
| y4gG (rmlD) | dTDP-4-dehydrorhamnose reductase (1.1.1.133) | 1↑(24) | Cytosol, 32.2 | A. tumefaciens RfbD (62%, 78%, e−100) |
| y4gH (rmlA) | Glucose-1-phosphate thymidylyltransferase (2.7.7.24) | 1↑(24) | Cytosol, 31.2 | A. tumefaciens RfbA (81%, 90%, e−131) |
| y4gI (wbgA) | Glycosyl transferase [O antigen synthesis protein] | 1-2↑(1-24) | Cytosol, 102.8 | Pseudomonas syringae pv. tomato DC3000 PSPTO 1074 (51%, 69%, 2e−147) |
| y4gJ | No significant homology | 0 | Cytosol, 21.1 | |
| fixF | Involved in O antigen synthesis | 3↑(24) | Cytosol, 45.0 | E. coli KpsS (25%, 42%, 2e−08) |
| y4gL (rmlC) | dTDP-4-dehydrorhamnose 3,5-epimerase (5.1.3.13) | 0 | Cytosol, 21.8 | A. tumefaciens RfbC (72%, 80%, 1e−76) |
| y4gM | ABC transporter ATP-binding protein | 0 | Membrane, 64.3 | A. tumefaciens Atu4600 (60%, 78%, 0) |
| y4gN | Glycosyl transferase [fragment?]d | 0 | Cytosol, 45.0 | Synechococcus sp. strain WH 8102 SYNWO641 (30%, 52%, 8e−15) |
| y4hA | Ionic transporter [Ca2+/H+ antiporter] | 2↑(1) | Membrane, 38.1 | Ralstonia metallidurans COG0387 (45%, 62%, 2e−60) |
| noeE | Sulfyryl transferase (2.8.2.-) | 3↑(1) | Cytosol, 46.6 | Bradyrhizobium elkanii (disrupted) NoeE (54%, 68%, 3e−79) |
Transcript data were taken from Perret et al. (41). Numbers represent the relative transcription intensity: 0, not expressed; 5, high (but not maximum level). The arrow indicates that a transcript is inducible by flavonoids, with the commencement of induction (in hours) shown in parentheses.
The predicted location and size of each ORF were taken from the PEDANT analysis website (http://pedant.gsf.de/).
Homology searches were made using the Blastp program (2) at the NCBI website (http://www.ncbi.nlm.nih.gov/BLAST/). The closest homologue is listed, along with the percentages of identity and similarity and then the E value of the homology.
y4gN has homology to the RpgF family of glycosyl transferases from various streptococci. This family is involved in the synthesis of a rhamnose-containing LPS molecule. The conserved domain is drastically truncated, however.