Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 104375 |
| Name | oriT_pCTYH.Ch1_3  |
| Organism | Ensifer adhaerens strain CTYH.Ch1 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_CP118613 (18435..18491 [-], 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_pCTYH.Ch1_3
GCAGGAAAAGGGCGTAGCACATTTTTCCGTATCCTGCCTCTCCAAATTGTAAGGGGA
GCAGGAAAAGGGCGTAGCACATTTTTCCGTATCCTGCCTCTCCAAATTGTAAGGGGA
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
T4CP
| ID | 3111 | GenBank | WP_275028115 |
| Name | t4cp2_PWG15_RS35980_pCTYH.Ch1_3 |
UniProt ID | _ |
| Length | 698 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 698 a.a. Molecular weight: 77679.69 Da Isoelectric Point: 9.8402
>WP_275028115.1 type IV secretory system conjugative DNA transfer family protein [Ensifer adhaerens]
MTKQLQAFYLLFCVGIAFVGWMLGYGLGLQLFYKDGRILETTITSNPFAPIQQLWHYKTSPALQKVALGS
MVPALLVAGLVAYIGLKPTSSPLGDAAFQDIASLRRGKWFRKQGHIFGRIGRNILRSKDDRHHLIIGPTR
SGKGAGYVIPNALMHEGSMIVTDLKGEVFKATAGYRRQNGSQVFLFAPGSEKTNSYNPLDFIRPERGNRT
TDIQNIASILVPENTESENSVWQATAQQVLAGVISYITESPFYKDRRNLAEVNSFFNSGVDLQALMKYIK
EKEPYLSKFTVESFNSYIALSERAAASALLDIQKAMRPFKNERIVAATNVTDMDLRAMKRRPISIYLAPN
ITDITLLRPLLTLFVQQVMDILTLEHDPNSLPVYFLLDEFRQLKRMDEIMTKLPYVAGYNIKLAFIIQDL
KNLDEIYGETSRHSLLGNCGYQLVLGANDQATAEYASRALGKRTIRYQSESRTIELMGLPRRTKVEQIRE
RDLMMPQEVRQMPENKMILLIEGQRPIFGEKLRFFQTQPFKSAEAFSQANIPQVPEVDYLSPKPVPATTP
EYTKGGDPSVEMLSAQAKEEKPLTTAAAEAAPVKAEPAADQKAPAPAKRTVNKKALRPKPKATAANTGGA
EASASLDAMEARIKAIEEGLKPKAAQIKEVVDKKAEKLGDKSPTKRRNIMDIFSATIPDPVDVGMPAE
MTKQLQAFYLLFCVGIAFVGWMLGYGLGLQLFYKDGRILETTITSNPFAPIQQLWHYKTSPALQKVALGS
MVPALLVAGLVAYIGLKPTSSPLGDAAFQDIASLRRGKWFRKQGHIFGRIGRNILRSKDDRHHLIIGPTR
SGKGAGYVIPNALMHEGSMIVTDLKGEVFKATAGYRRQNGSQVFLFAPGSEKTNSYNPLDFIRPERGNRT
TDIQNIASILVPENTESENSVWQATAQQVLAGVISYITESPFYKDRRNLAEVNSFFNSGVDLQALMKYIK
EKEPYLSKFTVESFNSYIALSERAAASALLDIQKAMRPFKNERIVAATNVTDMDLRAMKRRPISIYLAPN
ITDITLLRPLLTLFVQQVMDILTLEHDPNSLPVYFLLDEFRQLKRMDEIMTKLPYVAGYNIKLAFIIQDL
KNLDEIYGETSRHSLLGNCGYQLVLGANDQATAEYASRALGKRTIRYQSESRTIELMGLPRRTKVEQIRE
RDLMMPQEVRQMPENKMILLIEGQRPIFGEKLRFFQTQPFKSAEAFSQANIPQVPEVDYLSPKPVPATTP
EYTKGGDPSVEMLSAQAKEEKPLTTAAAEAAPVKAEPAADQKAPAPAKRTVNKKALRPKPKATAANTGGA
EASASLDAMEARIKAIEEGLKPKAAQIKEVVDKKAEKLGDKSPTKRRNIMDIFSATIPDPVDVGMPAE
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 29565..39474
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| PWG15_RS35975 (PWG15_35970) | 25294..27420 | - | 2127 | WP_275028114 | AAA family ATPase | - |
| PWG15_RS35980 (PWG15_35975) | 27472..29568 | - | 2097 | WP_275028115 | type IV secretory system conjugative DNA transfer family protein | - |
| PWG15_RS35985 (PWG15_35980) | 29565..30593 | - | 1029 | WP_275028116 | P-type DNA transfer ATPase VirB11 | virB11 |
| PWG15_RS35990 (PWG15_35985) | 30574..31785 | - | 1212 | WP_275028118 | type IV secretion system protein VirB10 | virB10 |
| PWG15_RS35995 (PWG15_35990) | 31785..32594 | - | 810 | WP_275028120 | TrbG/VirB9 family P-type conjugative transfer protein | virB9 |
| PWG15_RS36000 (PWG15_35995) | 32591..33286 | - | 696 | WP_018210780 | type IV secretion system protein | virB8 |
| PWG15_RS36005 (PWG15_36000) | 33312..34340 | - | 1029 | WP_275028122 | type IV secretion system protein | virB6 |
| PWG15_RS36010 (PWG15_36005) | 34356..34583 | - | 228 | WP_088196646 | hypothetical protein | - |
| PWG15_RS36015 (PWG15_36010) | 34573..35274 | - | 702 | WP_275028155 | type IV secretion system protein | - |
| PWG15_RS36020 (PWG15_36015) | 35286..36374 | - | 1089 | WP_275028123 | lytic transglycosylase domain-containing protein | - |
| PWG15_RS36025 (PWG15_36020) | 36371..38830 | - | 2460 | WP_275028156 | VirB4 family type IV secretion/conjugal transfer ATPase | virb4 |
| PWG15_RS36030 (PWG15_36025) | 38833..39132 | - | 300 | WP_014531077 | VirB3 family type IV secretion system protein | virB3 |
| PWG15_RS36035 (PWG15_36030) | 39136..39474 | - | 339 | WP_015241462 | TrbC/VirB2 family protein | virB2 |
| PWG15_RS36040 (PWG15_36035) | 39486..40397 | - | 912 | WP_275028157 | lytic transglycosylase domain-containing protein | - |
| PWG15_RS36045 (PWG15_36040) | 40620..41228 | + | 609 | WP_127664435 | hypothetical protein | - |
| PWG15_RS36050 (PWG15_36045) | 41225..41761 | + | 537 | WP_127664436 | thermonuclease family protein | - |
| PWG15_RS36055 (PWG15_36050) | 41758..42459 | + | 702 | WP_275028127 | thermonuclease family protein | - |
| PWG15_RS36060 (PWG15_36055) | 42517..42852 | + | 336 | WP_275028128 | hypothetical protein | - |
| PWG15_RS36065 (PWG15_36060) | 42865..43461 | + | 597 | WP_275028130 | hypothetical protein | - |
| PWG15_RS36070 (PWG15_36065) | 43480..43896 | + | 417 | WP_275028131 | hypothetical protein | - |
| PWG15_RS36075 (PWG15_36070) | 43942..44277 | - | 336 | WP_275028133 | hypothetical protein | - |
Host bacterium
| ID | 4814 | GenBank | NZ_CP118613 |
| Plasmid name | pCTYH.Ch1_3 | Incompatibility group | - |
| Plasmid size | 123871 bp | Coordinate of oriT [Strand] | 18435..18491 [-] |
| Host baterium | Ensifer adhaerens strain CTYH.Ch1 |
Cargo genes
| Drug resistance gene | - |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |