TABLE 3.
Complex repetitive sequences including insertion sequence elements in N. multiformis
| Gene cluster or region or ISE and tranposase | Size (bp) of repeat | No. of copies | Gene locus no.a | Designation |
|---|---|---|---|---|
| Gene cluster or region | ||||
| amoCAB-orf4-orf5 copC copD | 8,114 | 2 | A2326—A2320, A2766—A2760 | |
| amoCAB adjacent to hao (supercluster) | 3,729 | 1 | A0798—A0800 | |
| amoC single | 844 | 1 | A0177 | |
| amoC divergent at 75% | 565 | 1 | A2467 | |
| hao-orf2-c554-cytm552 | 5,090 | 3 | A0805—A0802, A1082—A1085, A2662—A2659 | |
| Translation elongation factor Tu | 1,180 | 2 | A0752, A0765 | |
| Membrane protein, Kef-type K+ transport system NAD-binding component; ion transport protein | 1,354 | 2 | A0075 and A0076, A1690 and A1691 | |
| Diguanylate cyclase/phosphodiesterse [GGDEF and EAL domains with PAS/PAC sensor(s)] | 1,131 | 2b | A0630, A1605 | |
| Amino acid adenylation condensation domains | 1,727 | 2c | A1829, A1830, A1832 | |
| ISE and transposases | ||||
| Transposase, IS3/IS911; putative transposase; putative transposase | 1,003 | 5 | ISNmu4 | |
| Transposase, IS3/IS911; integrase, catalytic region | 1,274 | 5 | ISNmu5 | |
| Transposase, IS3/IS911; integrase, catalytic region | 1,214 | 3 | ISNmu6 | |
| Transposase, IS4; transposase | 848 | 13d | ISNmu1 | |
| IS298 transposase OrfA; transposase, IS4 | 815 | 5 | ISNmu3 | |
| Integrase, catalytic region | 1,228 | 6 | ISNmu2 | |
| Transposase, IS3/IS911; integrase, catalytic region, one copy on plasmid 2 | 1,438 | 3 | ISNmu8 | |
| Transposase, IS3/IS911; integrase, catalytic region, one copy on plasmid 3 | 1,244 | 4 | ISNmu7 |
a
Nmul gene locus numbers are shown abbreviated: A2326—A2320, Nmul_A2326 to Nmul_A2320.
b
Three other copies with domains of 62 to 80% identity and one partial copy with only the GGDEF domain.
c
Ninety-three percent partial hit within the same protein, 70% identical portion in another protein.
d
Two degenerate copies of 75 to 80% identity.