Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 121139 |
| Name | oriT_pRRI128_3  |
| Organism | Sinorhizobium meliloti strain RRI128 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_CP088116 (133800..133856 [-], 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_pRRI128_3
GCAGGAAAAGGGCGTAGCACATTTTTCCGTATCCTGCCTCTCCAAATTGTGAGGGGA
GCAGGAAAAGGGCGTAGCACATTTTTCCGTATCCTGCCTCTCCAAATTGTGAGGGGA
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
T4CP
| ID | 15634 | GenBank | WP_027990884 |
| Name | t4cp2_SmelRRI128_RS32370_pRRI128_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: 77791.84 Da Isoelectric Point: 9.8534
>WP_027990884.1 type IV secretory system conjugative DNA transfer family protein [Sinorhizobium meliloti]
MTKQLQAFYLLFCVGIAFVVWMLGYGLGLQLFYKDGRILETTITSNPFAPIQQFWHYKTSPALQKVALGS
MVPALLVAGLVAYIGLKPTSSPLGDAAFQDMASLRRAKWFRKQGHIFGRVGRNILRTKDDRHHLIIGPTR
SGKGAGYVIPNALMHEGSMIVTDLKGEVFKATAGYRRQNGSQVFLFAPGSEKTNSYNPLEFIRPERGNRT
TDIQNIASILVPENTQSENSVWQATAQQVLAGVISYITESPFYKDRRNLAEVNSFFNSGVDLQALMKYIK
EKEPYLSKFTVESFNSYIALSERAAASALLDIQKAMRPFKNERIVAATNVTDMDLRAMKRRPISIYLAPN
ITDITLLRPLLTLFVQQVMDILTLEHDPNSLPVYFLLDEFRQLKRMDEIMTKLPYVAGYNIKLAFIIQDL
KNLDEIYGETSRHSLLGNCGYQLVLGANDQATAEYASRALGKRTIRYQSESRTIELMGLPRRTKVEQIRE
RDLMMPQEVRQMPETKMILLIEGQRPIFGEKLRFFQTQPFKSAEAFSQANIPQVPEVDYLAPKPVPATTP
EYAKGGDPSVEIPSLAPAKEEKPLTAAAAKAVPVKAERAADEKAAAPAKRTVNRQALRTNPKATAANIGG
AEASASLDAMEARIKAIEEGLKPKAAQLKEVVETKAEKLGDKSPTKRRNILDIFSATVPDPVEVGVTAE
MTKQLQAFYLLFCVGIAFVVWMLGYGLGLQLFYKDGRILETTITSNPFAPIQQFWHYKTSPALQKVALGS
MVPALLVAGLVAYIGLKPTSSPLGDAAFQDMASLRRAKWFRKQGHIFGRVGRNILRTKDDRHHLIIGPTR
SGKGAGYVIPNALMHEGSMIVTDLKGEVFKATAGYRRQNGSQVFLFAPGSEKTNSYNPLEFIRPERGNRT
TDIQNIASILVPENTQSENSVWQATAQQVLAGVISYITESPFYKDRRNLAEVNSFFNSGVDLQALMKYIK
EKEPYLSKFTVESFNSYIALSERAAASALLDIQKAMRPFKNERIVAATNVTDMDLRAMKRRPISIYLAPN
ITDITLLRPLLTLFVQQVMDILTLEHDPNSLPVYFLLDEFRQLKRMDEIMTKLPYVAGYNIKLAFIIQDL
KNLDEIYGETSRHSLLGNCGYQLVLGANDQATAEYASRALGKRTIRYQSESRTIELMGLPRRTKVEQIRE
RDLMMPQEVRQMPETKMILLIEGQRPIFGEKLRFFQTQPFKSAEAFSQANIPQVPEVDYLAPKPVPATTP
EYAKGGDPSVEIPSLAPAKEEKPLTAAAAKAVPVKAERAADEKAAAPAKRTVNRQALRTNPKATAANIGG
AEASASLDAMEARIKAIEEGLKPKAAQLKEVVETKAEKLGDKSPTKRRNILDIFSATVPDPVEVGVTAE
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 140336..150258
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| SmelRRI128_RS32355 (SmelRRI128_32355) | 136819..137088 | + | 270 | WP_231198685 | hypothetical protein | - |
| SmelRRI128_RS32360 (SmelRRI128_32360) | 137138..137581 | + | 444 | WP_027990885 | ester cyclase | - |
| SmelRRI128_RS32365 (SmelRRI128_32365) | 137746..138148 | + | 403 | Protein_150 | GFA family protein | - |
| SmelRRI128_RS32370 (SmelRRI128_32370) | 138240..140339 | - | 2100 | WP_027990884 | type IV secretory system conjugative DNA transfer family protein | - |
| SmelRRI128_RS32375 (SmelRRI128_32375) | 140336..141364 | - | 1029 | WP_027990883 | P-type DNA transfer ATPase VirB11 | virB11 |
| SmelRRI128_RS32380 (SmelRRI128_32380) | 141345..142556 | - | 1212 | WP_027990882 | type IV secretion system protein VirB10 | virB10 |
| SmelRRI128_RS32385 (SmelRRI128_32385) | 142553..143365 | - | 813 | WP_027990881 | P-type conjugative transfer protein VirB9 | virB9 |
| SmelRRI128_RS32390 (SmelRRI128_32390) | 143362..144057 | - | 696 | WP_027990880 | virB8 family protein | virB8 |
| SmelRRI128_RS32395 (SmelRRI128_32395) | 144096..145124 | - | 1029 | WP_027990879 | type IV secretion system protein | virB6 |
| SmelRRI128_RS32400 (SmelRRI128_32400) | 145140..145367 | - | 228 | WP_015061508 | hypothetical protein | - |
| SmelRRI128_RS32405 (SmelRRI128_32405) | 145357..146058 | - | 702 | WP_027990878 | type IV secretion system protein | - |
| SmelRRI128_RS32410 (SmelRRI128_32410) | 146070..147158 | - | 1089 | WP_027990877 | lytic transglycosylase domain-containing protein | - |
| SmelRRI128_RS32415 (SmelRRI128_32415) | 147155..149614 | - | 2460 | WP_027990876 | VirB4 family type IV secretion/conjugal transfer ATPase | virb4 |
| SmelRRI128_RS32420 (SmelRRI128_32420) | 149617..149916 | - | 300 | WP_020479309 | type IV secretion system protein VirB3 | virB3 |
| SmelRRI128_RS32425 (SmelRRI128_32425) | 149920..150258 | - | 339 | WP_027990875 | TrbC/VirB2 family protein | virB2 |
| SmelRRI128_RS32430 (SmelRRI128_32430) | 150270..151181 | - | 912 | WP_027990874 | lytic transglycosylase domain-containing protein | - |
| SmelRRI128_RS32435 (SmelRRI128_32435) | 151404..152012 | + | 609 | WP_026030756 | hypothetical protein | - |
| SmelRRI128_RS32440 (SmelRRI128_32440) | 152009..152545 | + | 537 | WP_027990873 | thermonuclease family protein | - |
| SmelRRI128_RS32445 (SmelRRI128_32445) | 152542..153243 | + | 702 | WP_027990872 | thermonuclease family protein | - |
| SmelRRI128_RS32450 (SmelRRI128_32450) | 153244..153648 | + | 405 | WP_027990871 | hypothetical protein | - |
| SmelRRI128_RS32455 (SmelRRI128_32455) | 153650..154247 | + | 598 | Protein_168 | hypothetical protein | - |
| SmelRRI128_RS32460 (SmelRRI128_32460) | 154270..154686 | + | 417 | WP_027990870 | hypothetical protein | - |
| SmelRRI128_RS32465 (SmelRRI128_32465) | 154753..155088 | - | 336 | WP_027990869 | hypothetical protein | - |
Host bacterium
| ID | 21567 | GenBank | NZ_CP088116 |
| Plasmid name | pRRI128_3 | Incompatibility group | - |
| Plasmid size | 306339 bp | Coordinate of oriT [Strand] | 133800..133856 [-] |
| Host baterium | Sinorhizobium meliloti strain RRI128 |
Cargo genes
| Drug resistance gene | - |
| Virulence gene | htpB |
| Metal resistance gene | - |
| Degradation gene | linJ, dxnH, LinG |
| Symbiosis gene | - |
| Anti-CRISPR | AcrIIA1 |