Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 105614 |
| Name | oriT_pSfHH103c  |
| Organism | Sinorhizobium fredii HH103 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NC_016814 (14284..14340 [-], 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_pSfHH103c
GCAGGAAAAGGGCGTAGCACATTTTTCCGTATCCTGCCTCTCCAAATTGTAAGGGGA
GCAGGAAAAGGGCGTAGCACATTTTTCCGTATCCTGCCTCTCCAAATTGTAAGGGGA
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
T4CP
| ID | 3815 | GenBank | WP_014330872 |
| Name | t4cp2_SFHH103_RS20800_pSfHH103c |
UniProt ID | _ |
| Length | 699 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 699 a.a. Molecular weight: 77549.52 Da Isoelectric Point: 9.7506
>WP_014330872.1 type IV secretory system conjugative DNA transfer family protein [Sinorhizobium fredii]
MTKQLQAAYLLFCVGIAFVVWMLGYGLGLQLFYKDGRILETTITSNPFAPIQQLWHYKTSPALQKVALGS
MVPALLMAGLMAYIGLKPTSSPLGDAAFQDIASLRRGKWFRKQGHIFGRIGRNILRTKDDRHHLIIGPTR
SGKGAGYVIPNALMHEGSMIVTDLKGEVFKATAGYRRQNGSQVFLFAPGSEKTNSYNPLDFIRPERGNRT
TDIQNIASILVPENTASENSVWQATAQQVLAGAISYMTESPFYKDRRNLAEVNSFFNSGVDLQALMKYIK
EKEPYLSKFTVESFNSYIALSERAAASALLDIQKAMRPFKNEQIVAATNVTDMDLRAMKRRPISIYLAPN
ITDITLLRPLLTLFVQQVMDLLTLEHDPNSLPVYFLLDEFRQLKRMDEIMTKLPYVAGYNIKLAFIIQDL
KNLDEIYGETSRHSLLGNCGYQLVLGANDQATAEYASRALGKRTIRYQSESRTIELMGLPRRTKVEQIRE
RDLMMPQEVRQMPENKMILLIEGQRPIFGEKLRFFQTQPFKSAEAFSQANIPQVPEVDYLSPKPVPATTP
EYAKGGDPSVEIPSPAPAKDEKPFTAAAAEAAPVKPEPAADEKAAAPAKRTVNKKALRPKPKATAANTGG
AEASASLDAMEARIKAIEEGLKPKAAQLKEVVETKAEKLGDKSPTKRRNIMDIFSATVPDPVEVGVAAE
MTKQLQAAYLLFCVGIAFVVWMLGYGLGLQLFYKDGRILETTITSNPFAPIQQLWHYKTSPALQKVALGS
MVPALLMAGLMAYIGLKPTSSPLGDAAFQDIASLRRGKWFRKQGHIFGRIGRNILRTKDDRHHLIIGPTR
SGKGAGYVIPNALMHEGSMIVTDLKGEVFKATAGYRRQNGSQVFLFAPGSEKTNSYNPLDFIRPERGNRT
TDIQNIASILVPENTASENSVWQATAQQVLAGAISYMTESPFYKDRRNLAEVNSFFNSGVDLQALMKYIK
EKEPYLSKFTVESFNSYIALSERAAASALLDIQKAMRPFKNEQIVAATNVTDMDLRAMKRRPISIYLAPN
ITDITLLRPLLTLFVQQVMDLLTLEHDPNSLPVYFLLDEFRQLKRMDEIMTKLPYVAGYNIKLAFIIQDL
KNLDEIYGETSRHSLLGNCGYQLVLGANDQATAEYASRALGKRTIRYQSESRTIELMGLPRRTKVEQIRE
RDLMMPQEVRQMPENKMILLIEGQRPIFGEKLRFFQTQPFKSAEAFSQANIPQVPEVDYLSPKPVPATTP
EYAKGGDPSVEIPSPAPAKDEKPFTAAAAEAAPVKPEPAADEKAAAPAKRTVNKKALRPKPKATAANTGG
AEASASLDAMEARIKAIEEGLKPKAAQLKEVVETKAEKLGDKSPTKRRNIMDIFSATVPDPVEVGVAAE
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 34736..44652
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| SFHH103_RS35320 (SFHH103_04077) | 30787..32202 | - | 1416 | WP_014330871 | AmmeMemoRadiSam system radical SAM enzyme | - |
| SFHH103_RS38745 | 32233..32635 | - | 403 | Protein_31 | hypothetical protein | - |
| SFHH103_RS20800 (SFHH103_04078) | 32640..34739 | - | 2100 | WP_014330872 | type IV secretory system conjugative DNA transfer family protein | - |
| SFHH103_RS20805 (SFHH103_04079) | 34736..35764 | - | 1029 | WP_014330873 | P-type DNA transfer ATPase VirB11 | virB11 |
| SFHH103_RS20810 (SFHH103_04080) | 35745..36956 | - | 1212 | WP_014330874 | type IV secretion system protein VirB10 | virB10 |
| SFHH103_RS20815 (SFHH103_04081) | 36956..37765 | - | 810 | WP_014330875 | P-type conjugative transfer protein VirB9 | virB9 |
| SFHH103_RS20820 (SFHH103_04082) | 37762..38457 | - | 696 | WP_014330876 | type IV secretion system protein | virB8 |
| SFHH103_RS20825 (SFHH103_04083) | 38490..39518 | - | 1029 | WP_014330877 | type IV secretion system protein | virB6 |
| SFHH103_RS20830 (SFHH103_04084) | 39534..39761 | - | 228 | WP_014330878 | hypothetical protein | - |
| SFHH103_RS20835 (SFHH103_04085) | 39754..40452 | - | 699 | WP_014330879 | type IV secretion system protein | - |
| SFHH103_RS20840 (SFHH103_04086) | 40464..41552 | - | 1089 | WP_014330880 | lytic transglycosylase domain-containing protein | - |
| SFHH103_RS20845 (SFHH103_04087) | 41549..44008 | - | 2460 | WP_014330881 | VirB4 family type IV secretion/conjugal transfer ATPase | virb4 |
| SFHH103_RS20850 (SFHH103_04088) | 44011..44310 | - | 300 | WP_014330882 | VirB3 family type IV secretion system protein | virB3 |
| SFHH103_RS20855 (SFHH103_04089) | 44314..44652 | - | 339 | WP_014330883 | TrbC/VirB2 family protein | virB2 |
| SFHH103_RS20860 (SFHH103_04090) | 44664..45575 | - | 912 | WP_014330884 | lytic transglycosylase domain-containing protein | - |
| SFHH103_RS20865 (SFHH103_04091) | 45799..46407 | + | 609 | WP_014330885 | hypothetical protein | - |
| SFHH103_RS20870 (SFHH103_04092) | 46404..46937 | + | 534 | WP_014330886 | succinoglycan biosynthesis protein exoi | - |
| SFHH103_RS20875 (SFHH103_04093) | 46934..47635 | + | 702 | WP_014330887 | thermonuclease family protein | - |
| SFHH103_RS35330 (SFHH103_04095) | 48019..48609 | + | 591 | WP_014330889 | hypothetical protein | - |
| SFHH103_RS20880 (SFHH103_04096) | 48629..49045 | + | 417 | WP_014330890 | hypothetical protein | - |
| SFHH103_RS20885 (SFHH103_04097) | 49150..49485 | - | 336 | WP_014330891 | hypothetical protein | - |
Host bacterium
| ID | 6052 | GenBank | NC_016814 |
| Plasmid name | pSfHH103c | Incompatibility group | - |
| Plasmid size | 144082 bp | Coordinate of oriT [Strand] | 14284..14340 [-] |
| Host baterium | Sinorhizobium fredii HH103 |
Cargo genes
| Drug resistance gene | - |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |