Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 115787 |
| Name | oriT_pSU277_3  |
| Organism | Sinorhizobium medicae strain SU277 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_CP104150 (177035..177091 [-], 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_pSU277_3
GCAGGAAAAGGGCGTAGCACATTTTTCCGTATCCTGCCTCTCCCAATTGTGAGGGGA
GCAGGAAAAGGGCGTAGCACATTTTTCCGTATCCTGCCTCTCCCAATTGTGAGGGGA
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
T4CP
| ID | 11814 | GenBank | WP_127626075 |
| Name | t4cp2_N2598_RS31590_pSU277_3 |
UniProt ID | _ |
| Length | 699 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 699 a.a. Molecular weight: 77755.63 Da Isoelectric Point: 9.8116
>WP_127626075.1 type IV secretory system conjugative DNA transfer family protein [Sinorhizobium medicae]
MTKQLQAFYLLFCVGIAFVVWMLGYGLGLQLFYKDGRILETTITSNPFAPIQQFWHYKTSPALQKVALGS
LVPAMLVAGLVAYIGLKPTSSPLGDAAFQDMASLRRGKWFRKQGHIFGRVGRNILRTRDDRHHLIIGPTR
SGKGAGYVIPNALMHEGSMIVTDLKGEVFKATAGYRRQNGSQVFLFAPGSEKTNSYNPLDFIRPERGNRT
TDIQNIASILVPENTESENSVWQATAQQVLAGAISYITESPFYKDRRNLAEVNSFFNSGVDLQALMKYIK
EKESYLSKFTVESFNSYIALSERAAASALLDIQKAMRPFKNERIVAATNVTDMDLRAMKRRPISIYLAPN
ITDITLLRPLLTLFVQQVMDILTLEHDPNSLPVYFLLDEFRQLKRMDEIMTKLPYVAGYNIKLAFIIQDL
KNLDEIYGETSRHSLLGNCGYQLVLGANDQATAEYASRALGKRTIRYQSESRTIELMGLPRRTKVEQIRE
RDLMMPQEVRQMPENKMILLIEGQRPIFGEKLRFFQTQPFKSAEAFSQANIPQVPEVDYLAPKPVPATTP
EYAKGGDPSVEIPSLAPAKEEKPLTAAAAKAVPVKAERAADEKAAAPAKRTVNRQALRTNPKATAANTGG
AEASASLDAMEARIKAIEEGLKPKAAQLKEVVETKAEKLGDKSPTKRRNILDIFSATVPDPVEVGVTAE
MTKQLQAFYLLFCVGIAFVVWMLGYGLGLQLFYKDGRILETTITSNPFAPIQQFWHYKTSPALQKVALGS
LVPAMLVAGLVAYIGLKPTSSPLGDAAFQDMASLRRGKWFRKQGHIFGRVGRNILRTRDDRHHLIIGPTR
SGKGAGYVIPNALMHEGSMIVTDLKGEVFKATAGYRRQNGSQVFLFAPGSEKTNSYNPLDFIRPERGNRT
TDIQNIASILVPENTESENSVWQATAQQVLAGAISYITESPFYKDRRNLAEVNSFFNSGVDLQALMKYIK
EKESYLSKFTVESFNSYIALSERAAASALLDIQKAMRPFKNERIVAATNVTDMDLRAMKRRPISIYLAPN
ITDITLLRPLLTLFVQQVMDILTLEHDPNSLPVYFLLDEFRQLKRMDEIMTKLPYVAGYNIKLAFIIQDL
KNLDEIYGETSRHSLLGNCGYQLVLGANDQATAEYASRALGKRTIRYQSESRTIELMGLPRRTKVEQIRE
RDLMMPQEVRQMPENKMILLIEGQRPIFGEKLRFFQTQPFKSAEAFSQANIPQVPEVDYLAPKPVPATTP
EYAKGGDPSVEIPSLAPAKEEKPLTAAAAKAVPVKAERAADEKAAAPAKRTVNRQALRTNPKATAANTGG
AEASASLDAMEARIKAIEEGLKPKAAQLKEVVETKAEKLGDKSPTKRRNILDIFSATVPDPVEVGVTAE
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 273937..283150
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| N2598_RS31510 (N2598_31510) | 270549..270953 | - | 405 | WP_127626065 | hypothetical protein | - |
| N2598_RS31515 (N2598_31515) | 270954..271654 | - | 701 | Protein_296 | thermonuclease family protein | - |
| N2598_RS31520 (N2598_31520) | 271651..272187 | - | 537 | WP_127626066 | thermonuclease family protein | - |
| N2598_RS31525 (N2598_31525) | 272184..272792 | - | 609 | WP_102033093 | hypothetical protein | - |
| N2598_RS31530 (N2598_31530) | 273014..273925 | + | 912 | WP_164855759 | lytic transglycosylase domain-containing protein | - |
| N2598_RS31535 (N2598_31535) | 273937..274275 | + | 339 | WP_127626067 | TrbC/VirB2 family protein | virB2 |
| N2598_RS31540 (N2598_31540) | 274279..274578 | + | 300 | WP_127626068 | type IV secretion system protein VirB3 | virB3 |
| N2598_RS31545 (N2598_31545) | 274581..276671 | + | 2091 | Protein_302 | VirB4 family type IV secretion system protein | - |
| N2598_RS32540 | 276670..277416 | + | 747 | Protein_303 | lytic transglycosylase domain-containing protein | - |
| N2598_RS31555 (N2598_31555) | 277428..278129 | + | 702 | WP_127626069 | type IV secretion system protein | - |
| N2598_RS31560 (N2598_31560) | 278119..278346 | + | 228 | WP_127626070 | hypothetical protein | - |
| N2598_RS31565 (N2598_31565) | 278362..279390 | + | 1029 | WP_127626071 | type IV secretion system protein | virB6 |
| N2598_RS31570 (N2598_31570) | 279429..280124 | + | 696 | WP_127626072 | virB8 family protein | virB8 |
| N2598_RS31575 (N2598_31575) | 280121..280933 | + | 813 | WP_127626073 | P-type conjugative transfer protein VirB9 | virB9 |
| N2598_RS31580 (N2598_31580) | 280930..282141 | + | 1212 | WP_127626074 | type IV secretion system protein VirB10 | virB10 |
| N2598_RS31585 (N2598_31585) | 282122..283150 | + | 1029 | WP_014531068 | P-type DNA transfer ATPase VirB11 | virB11 |
| N2598_RS31590 (N2598_31590) | 283147..285246 | + | 2100 | WP_127626075 | type IV secretory system conjugative DNA transfer family protein | - |
| N2598_RS31595 (N2598_31595) | 286337..286756 | - | 420 | Protein_312 | IS5 family transposase | - |
| N2598_RS31600 (N2598_31600) | 286687..286929 | - | 243 | WP_231234275 | hypothetical protein | - |
| N2598_RS31605 (N2598_31605) | 286951..287118 | - | 168 | WP_164830104 | transposase | - |
Host bacterium
| ID | 16220 | GenBank | NZ_CP104150 |
| Plasmid name | pSU277_3 | Incompatibility group | - |
| Plasmid size | 366163 bp | Coordinate of oriT [Strand] | 177035..177091 [-] |
| Host baterium | Sinorhizobium medicae strain SU277 |
Cargo genes
| Drug resistance gene | - |
| Virulence gene | htpB |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |