Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 103860 |
| Name | oriT_T073|accessoryA  |
| Organism | Sinorhizobium meliloti strain T073 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_CP021807 (121624..121680 [+], 57 nt) |
| oriT length | 57 nt |
| IRs (inverted repeats) | 4..9, 23..28 (GGAAAA..TTTTCC) |
| Location of nic site | 36..37 |
| Conserved sequence flanking the nic site |
TCCTGCCTCT |
| Note | Predicted by oriTfinder 2.0 |
oriT sequence
Download Length: 57 nt
>oriT_T073|accessoryA
GCAGGAAAATGGCGTAGCACGTTTTTCCGTATCCTGCCTCTCCCAATTGTAAGGGGA
GCAGGAAAATGGCGTAGCACGTTTTTCCGTATCCTGCCTCTCCCAATTGTAAGGGGA
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
T4CP
| ID | 2708 | GenBank | WP_088196651 |
| Name | t4cp2_CDO28_RS34315_T073|accessoryA |
UniProt ID | _ |
| Length | 706 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 706 a.a. Molecular weight: 79028.80 Da Isoelectric Point: 9.5383
>WP_088196651.1 type IV secretory system conjugative DNA transfer family protein [Sinorhizobium meliloti]
MTKQLQAFYLLFCVGIAFVVWMLGYGLGLQLFYRDGRILETTITSNPFVPIQQFWHYKTSTALQKVALGS
MVPALLVAGLVAYIGLKPTSSPLGDAAFQDMASLRRGKWFRKQGHIFGRVGRNILRTKDDRHHLIIGPTR
SGKGAGYVIPNALMHEGSMIVTDLKGEVFKATAGYRRQNGSQVFLFAPGSEKTNSYNPLDFIRPERGNRT
TDIQNIASILVPENTESENSVWQATAQQVLAGAISYITESPFYKDRRNLAEVNSFFNSGVDLQTLMKYIK
EKEPYLSKFTVESFNSYIALSERAAASALLDIQKAMRPFKNERIVAATNVTDMDLRAMKRRPISIYLAPN
ITDITLLRPLLTLFVQQVMDILTLEHDPNSLPVYFLLDEFRQLKRMDEIMTKLPYVAGYNIKLAFIIQDL
KNLDEIYGETSRHSLLGNCGYQLVLGANDQATAEYASRALGKRTIRYQSESRTIELMGLPRRTKVEQIRE
RDLMMPQEVRQMPENKMILLIEGQRPIFGEKLRFFQTQPFKSAEAFSQANIPQVPEVDYLTPKPVPATTP
EYAKGGDPSVEIPASALTLEDARAIAEPAEPAPVKQQSPAEEKAVEPTKRSVNRKALRPKPKGTTAKAGG
ATSSVSIDDMEARIRAIEEGLKPKATQLKEVVETKVQKLRDNSPTTRRNFMDIFNATVPDPAEVGVAGNE
DEGFDN
MTKQLQAFYLLFCVGIAFVVWMLGYGLGLQLFYRDGRILETTITSNPFVPIQQFWHYKTSTALQKVALGS
MVPALLVAGLVAYIGLKPTSSPLGDAAFQDMASLRRGKWFRKQGHIFGRVGRNILRTKDDRHHLIIGPTR
SGKGAGYVIPNALMHEGSMIVTDLKGEVFKATAGYRRQNGSQVFLFAPGSEKTNSYNPLDFIRPERGNRT
TDIQNIASILVPENTESENSVWQATAQQVLAGAISYITESPFYKDRRNLAEVNSFFNSGVDLQTLMKYIK
EKEPYLSKFTVESFNSYIALSERAAASALLDIQKAMRPFKNERIVAATNVTDMDLRAMKRRPISIYLAPN
ITDITLLRPLLTLFVQQVMDILTLEHDPNSLPVYFLLDEFRQLKRMDEIMTKLPYVAGYNIKLAFIIQDL
KNLDEIYGETSRHSLLGNCGYQLVLGANDQATAEYASRALGKRTIRYQSESRTIELMGLPRRTKVEQIRE
RDLMMPQEVRQMPENKMILLIEGQRPIFGEKLRFFQTQPFKSAEAFSQANIPQVPEVDYLTPKPVPATTP
EYAKGGDPSVEIPASALTLEDARAIAEPAEPAPVKQQSPAEEKAVEPTKRSVNRKALRPKPKGTTAKAGG
ATSSVSIDDMEARIRAIEEGLKPKATQLKEVVETKVQKLRDNSPTTRRNFMDIFNATVPDPAEVGVAGNE
DEGFDN
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 61173..71084
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| CDO28_RS34225 (CDO28_34225) | 56748..57164 | - | 417 | WP_088196638 | hypothetical protein | - |
| CDO28_RS34230 (CDO28_34230) | 57189..57782 | - | 594 | Protein_48 | hypothetical protein | - |
| CDO28_RS34235 (CDO28_34235) | 57784..58131 | - | 348 | WP_234827325 | hypothetical protein | - |
| CDO28_RS34240 (CDO28_34240) | 58189..58890 | - | 702 | WP_088196640 | thermonuclease family protein | - |
| CDO28_RS34245 (CDO28_34245) | 58887..59423 | - | 537 | WP_088196641 | succinoglycan biosynthesis protein exoi | - |
| CDO28_RS34250 (CDO28_34250) | 59420..60028 | - | 609 | WP_088196642 | hypothetical protein | - |
| CDO28_RS34255 (CDO28_34255) | 60188..61162 | + | 975 | WP_234827326 | lytic transglycosylase domain-containing protein | - |
| CDO28_RS34260 (CDO28_34260) | 61173..61511 | + | 339 | WP_017265136 | TrbC/VirB2 family protein | virB2 |
| CDO28_RS34265 (CDO28_34265) | 61515..61814 | + | 300 | WP_020479309 | VirB3 family type IV secretion system protein | virB3 |
| CDO28_RS34270 (CDO28_34270) | 61817..64276 | + | 2460 | WP_088196643 | VirB4 family type IV secretion/conjugal transfer ATPase | virb4 |
| CDO28_RS34275 (CDO28_34275) | 64273..65361 | + | 1089 | WP_088196644 | lytic transglycosylase domain-containing protein | - |
| CDO28_RS34280 (CDO28_34280) | 65373..66074 | + | 702 | WP_088196645 | type IV secretion system protein | - |
| CDO28_RS34285 (CDO28_34285) | 66064..66291 | + | 228 | WP_088196646 | hypothetical protein | - |
| CDO28_RS34290 (CDO28_34290) | 66307..67335 | + | 1029 | WP_088196647 | type IV secretion system protein | virB6 |
| CDO28_RS34295 (CDO28_34295) | 67362..68057 | + | 696 | WP_088196648 | type IV secretion system protein | virB8 |
| CDO28_RS34300 (CDO28_34300) | 68054..68864 | + | 811 | Protein_62 | TrbG/VirB9 family P-type conjugative transfer protein | - |
| CDO28_RS34305 (CDO28_34305) | 68864..70075 | + | 1212 | WP_088196649 | type IV secretion system protein VirB10 | virB10 |
| CDO28_RS34310 (CDO28_34310) | 70056..71084 | + | 1029 | WP_088196650 | P-type DNA transfer ATPase VirB11 | virB11 |
| CDO28_RS34315 (CDO28_34315) | 71081..73201 | + | 2121 | WP_088196651 | type IV secretory system conjugative DNA transfer family protein | - |
| CDO28_RS36585 | 73283..73708 | - | 426 | WP_234827327 | HlyD family efflux transporter periplasmic adaptor subunit | - |
| CDO28_RS36590 | 73906..74169 | - | 264 | WP_234827328 | hypothetical protein | - |
| CDO28_RS34325 (CDO28_34325) | 74339..74572 | - | 234 | WP_088196652 | hypothetical protein | - |
| CDO28_RS36595 | 74569..74739 | - | 171 | WP_234827333 | hypothetical protein | - |
| CDO28_RS36600 | 74679..75257 | - | 579 | WP_234827329 | ATP-binding cassette domain-containing protein | - |
| CDO28_RS36605 | 75388..75618 | - | 231 | WP_234827330 | hypothetical protein | - |
Host bacterium
| ID | 4300 | GenBank | NZ_CP021807 |
| Plasmid name | T073|accessoryA | Incompatibility group | - |
| Plasmid size | 158363 bp | Coordinate of oriT [Strand] | 121624..121680 [+] |
| Host baterium | Sinorhizobium meliloti strain T073 |
Cargo genes
| Drug resistance gene | - |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |