Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 106129 |
| Name | oriT_pHelD  |
| Organism | Pseudomonas syringae pv. helianthi strain LMG 5067 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_CP092922 (39072..39255 [+], 184 nt) |
| oriT length | 184 nt |
| IRs (inverted repeats) | 157..162, 169..174 (ATCAAT..ATTGAT) 87..94, 98..105 (CAAAGGGG..CCCCTTTG) 49..55, 65..71 (CGGGGGG..CCCCCCG) 50..55, 64..69 (GGGGGG..CCCCCC) |
| Location of nic site | _ |
| Conserved sequence flanking the nic site |
_ |
| Note | Predicted by oriTfinder 2.0 |
oriT sequence
Download Length: 184 nt
>oriT_pHelD
CTGACCCCCTATCTCGAATTCGCTAAACAGGCACGTTACCGATGTATACGGGGGGATGAAGCGCCCCCCCGAATACATCGCCGTGCCAAAGGGGAAACCCCTTTGAAACCCCGCAGAGCGTTAGCGCTGCGCTTGTCGTTTGTCATCAGTCGATAAATCAATTGCGTCATTGATCGTCGGAGGC
CTGACCCCCTATCTCGAATTCGCTAAACAGGCACGTTACCGATGTATACGGGGGGATGAAGCGCCCCCCCGAATACATCGCCGTGCCAAAGGGGAAACCCCTTTGAAACCCCGCAGAGCGTTAGCGCTGCGCTTGTCGTTTGTCATCAGTCGATAAATCAATTGCGTCATTGATCGTCGGAGGC
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
T4CP
| ID | 4120 | GenBank | WP_054986455 |
| Name | t4cp2_MME54_RS28740_pHelD |
UniProt ID | _ |
| Length | 550 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 550 a.a. Molecular weight: 61443.23 Da Isoelectric Point: 6.3359
>WP_054986455.1 MULTISPECIES: type IV secretory system conjugative DNA transfer family protein [Pseudomonas syringae group]
MARAKPKPISPDNPQERIEEHPAFLLGKHPTKDVFLASYGQQFVMLAAPPGSMKGVSAVIPNLLSYPDSM
VVNDPKFENWDVTSGFRASAGHKVYRFSPERLETHRWNPVSAISRDPLYRLGDIRTLARVLFVSDNPKNQ
EWYNKAGNVFSSILLYLMETPAMPCTLPQAYEIGSLGTGIGTWAQQIIELRSIGPNALSFETLRELNGVY
EASKNKSSGWSTTVDILRDVLSVYAEKTVAWAVSGDDIDFAKMREEKTTVYFSVTEGNLKKYGPLMNLFF
TQAIRLNSKVLPEQGGHCADGTLRYKYQLALMMDEFAIMGRMEIMETAPALTRGAGLRFFLIFQGKDQIR
AVYGEEAANGIMKAIHNEIVFAPGDIELAKEYSKRLGDTTVRVHNQSLNKQKHAIGAQGQTDSYSEQPRP
LLLPQEVNELPFDKQLIFVQGNRQTEPMKILARKIIYFEEEVFKARQKMTPPPLPVGDATKIDALTVPVR
TIEAKVAVADAKPMQAEQRQRWNPKEKAANAVPDQPDAAQPVEVEPDPEPVQADDTSEPM
MARAKPKPISPDNPQERIEEHPAFLLGKHPTKDVFLASYGQQFVMLAAPPGSMKGVSAVIPNLLSYPDSM
VVNDPKFENWDVTSGFRASAGHKVYRFSPERLETHRWNPVSAISRDPLYRLGDIRTLARVLFVSDNPKNQ
EWYNKAGNVFSSILLYLMETPAMPCTLPQAYEIGSLGTGIGTWAQQIIELRSIGPNALSFETLRELNGVY
EASKNKSSGWSTTVDILRDVLSVYAEKTVAWAVSGDDIDFAKMREEKTTVYFSVTEGNLKKYGPLMNLFF
TQAIRLNSKVLPEQGGHCADGTLRYKYQLALMMDEFAIMGRMEIMETAPALTRGAGLRFFLIFQGKDQIR
AVYGEEAANGIMKAIHNEIVFAPGDIELAKEYSKRLGDTTVRVHNQSLNKQKHAIGAQGQTDSYSEQPRP
LLLPQEVNELPFDKQLIFVQGNRQTEPMKILARKIIYFEEEVFKARQKMTPPPLPVGDATKIDALTVPVR
TIEAKVAVADAKPMQAEQRQRWNPKEKAANAVPDQPDAAQPVEVEPDPEPVQADDTSEPM
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 17315..27657
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| MME54_RS28620 (MME54_28620) | 13248..13901 | + | 654 | WP_054988118 | division plane positioning ATPase MipZ | - |
| MME54_RS28625 (MME54_28625) | 13950..14261 | + | 312 | WP_053480882 | hypothetical protein | - |
| MME54_RS28630 (MME54_28630) | 14580..14960 | - | 381 | WP_082441264 | outer membrane protein assembly factor BamE | - |
| MME54_RS28635 (MME54_28635) | 15307..15777 | - | 471 | WP_053480883 | DUF6392 family protein | - |
| MME54_RS28640 (MME54_28640) | 15865..16215 | - | 351 | WP_015060682 | helix-turn-helix transcriptional regulator | - |
| MME54_RS28645 (MME54_28645) | 16479..17006 | + | 528 | WP_053480884 | transcription termination/antitermination NusG family protein | - |
| MME54_RS28650 (MME54_28650) | 17071..17286 | + | 216 | WP_004666691 | hypothetical protein | - |
| MME54_RS28655 (MME54_28655) | 17315..18013 | + | 699 | WP_241409927 | lytic transglycosylase domain-containing protein | virB1 |
| MME54_RS28660 (MME54_28660) | 18013..18348 | + | 336 | WP_338156158 | conjugal transfer protein | - |
| MME54_RS28665 (MME54_28665) | 18361..18837 | + | 477 | WP_082441265 | VirB3 family type IV secretion system protein | virB3 |
| MME54_RS28670 (MME54_28670) | 18776..21250 | + | 2475 | WP_241409929 | conjugal transfer protein | virb4 |
| MME54_RS28675 (MME54_28675) | 21247..21933 | + | 687 | WP_054988119 | P-type DNA transfer protein VirB5 | - |
| MME54_RS28680 (MME54_28680) | 21966..22319 | + | 354 | WP_054988120 | hypothetical protein | - |
| MME54_RS28685 (MME54_28685) | 22330..23262 | + | 933 | WP_054988121 | type IV secretion system protein | virB6 |
| MME54_RS28690 (MME54_28690) | 23330..23602 | + | 273 | WP_082441267 | conjugal transfer protein | - |
| MME54_RS28695 (MME54_28695) | 23639..24427 | + | 789 | WP_241409919 | type IV secretion system protein | virB8 |
| MME54_RS28700 (MME54_28700) | 24417..25226 | + | 810 | WP_241409920 | P-type conjugative transfer protein VirB9 | virB9 |
| MME54_RS28705 (MME54_28705) | 25213..26589 | + | 1377 | WP_054986449 | TrbI/VirB10 family protein | virB10 |
| MME54_RS28710 (MME54_28710) | 26599..27657 | + | 1059 | WP_054986450 | P-type DNA transfer ATPase VirB11 | virB11 |
| MME54_RS28715 (MME54_28715) | 27667..28023 | + | 357 | WP_054986451 | hypothetical protein | - |
| MME54_RS28720 (MME54_28720) | 28147..30555 | + | 2409 | WP_054986457 | ATP-binding protein | - |
| MME54_RS28725 (MME54_28725) | 30677..30907 | + | 231 | WP_054986452 | hypothetical protein | - |
| MME54_RS28730 (MME54_28730) | 30907..31095 | + | 189 | Protein_35 | type IV secretory system conjugative DNA transfer family protein | - |
| MME54_RS28735 (MME54_28735) | 31113..31346 | + | 234 | WP_054986454 | hypothetical protein | - |
Host bacterium
| ID | 6566 | GenBank | NZ_CP092922 |
| Plasmid name | pHelD | Incompatibility group | - |
| Plasmid size | 46237 bp | Coordinate of oriT [Strand] | 39072..39255 [+] |
| Host baterium | Pseudomonas syringae pv. helianthi strain LMG 5067 |
Cargo genes
| Drug resistance gene | - |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |