Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 103930 |
| Name | oriT_pPor1_6  |
| Organism | Pseudomonas coronafaciens pv. oryzae str. 1_6 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_CP046036 (45224..45404 [+], 181 nt) |
| oriT length | 181 nt |
| IRs (inverted repeats) | 80..87, 91..98 (CAAAGGGG..CCCCTTTG) 42..47, 56..61 (AAAAAG..CTTTTT) |
| Location of nic site | _ |
| Conserved sequence flanking the nic site |
_ |
| Note | Predicted by oriTfinder 2.0 |
oriT sequence
Download Length: 181 nt
>oriT_pPor1_6
ATCTCGAATTCGCTAAACAGGCACGTTACCGATTGTCTACAAAAAAGAGCTTCGCCTTTTTCGTAGCCAATCGACGTGCCAAAGGGGATACCCCTTTGAAACCCCGCAGGGCGGGAAAGCGTCGTTGTTGTCGTTGTTGGTTGTCGTCATTCCAGGTGCCCCCAGGAGGTGATCTTGTGGC
ATCTCGAATTCGCTAAACAGGCACGTTACCGATTGTCTACAAAAAAGAGCTTCGCCTTTTTCGTAGCCAATCGACGTGCCAAAGGGGATACCCCTTTGAAACCCCGCAGGGCGGGAAAGCGTCGTTGTTGTCGTTGTTGGTTGTCGTCATTCCAGGTGCCCCCAGGAGGTGATCTTGTGGC
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 2922 | GenBank | WP_080053558 |
| Name | Relaxase_POR16_RS26090_pPor1_6 |
UniProt ID | _ |
| Length | 1245 a.a. | PDB ID | |
| Note | Predicted by oriTfinder 2.0 | ||
Relaxase protein sequence
Download Length: 1245 a.a. Molecular weight: 138277.81 Da Isoelectric Point: 8.8124
>WP_080053558.1 MULTISPECIES: LPD7 domain-containing protein [Pseudomonas syringae group]
MLIRVSGYNTGAQEYLEQGNKSGREFTRDELDHRLIIEGQLSVTRAIYESIPDHGQDRYLTFTLSFKEDT
VSPELLKAVTTDFKNFFMHAYKPEEFNLYAEAHLPKMKTVTDRKTGEVIDRKPHIHIIIPRINLLSGNEA
NPVDVYKNHEKYFEAFQEHINQKYGLSSPRENVRADITDAASVLSRYKGDDFYGKNRQFKQQLVKQVIER
GVTSRADFYALVAEHGETRIRNEGKDNEYISVKLPGDAKGTNLKDTIFQDAFIVRRELKKPPLEASVIQE
RLLAWPQRAREIKYVNKATPKFRKQYSQASPEERVRLLAERETNFYRAHGDDYESVHTWQRQRDNQRSPA
ETTGRRTAAPADGLQDLSVSDVADHRQAGPTRSRDGALLLPSDAHVHVGQSQPGGDSGLRSSVPGGGRGR
RVGSTAERGRGGSQPAAVSQETKGTATPAGATGRRRAGAGKPRNTRVRAGRVVPPYAQNPHRVATIADIE
ERGRRLFDPLKWPSDNALVFYRSSSHPQVADQLPRATAATTTPVQSTAGRRPRSSGKPRPPRQWRPGAVP
PYAKNPHRVATVADIEQRARMLFDPLKRPADKALVFKRASIKALTVNKHASTVAAYFTRQAQHNQIAPAH
RRAIRRIDQQYFALRRAVFSDQRLTRQDKAQLVSVLTFERLKAREQFHKSQPNIEVNLMGSAAIRNLLDD
EKEDPGFSISGARGPGREGVRDQVKRIMDRFAKQVDPVAASERARDLSAKDLYTRKAKFSQNVHYLDKQT
DKTLFVDTGTTISMRRTGITEAGVSVALQLARERFGSTLTINGTAEFKKLVIEAVAKNGLDVHFTDKAMN
QSLADRRAELDIERGGQSIGPATDLPRHVDDATRDVRDQADRLGVTVPIEAMYGQGKTADQVSQALATQL
DTVPEPERIAFVETVAITLAIPERGEPKGDQAFAQWQSQRAQPAADSAATATTEMQTAVPMPSDAAPEPM
SPEAEMPTLANDPALQSPSELVRLEAQWRRDFPMSEADVRASDTVMGLRGEDHAVWIIATNDKTPEAAAM
LTAYMENDSYREAFKASIVAAYKQVENSPKLVDDLDHLTAMAAQIVNEVEDRLYPAPQASSESTNKIIEG
TLIEHGEAPYQHNDDNQMSYFVTLKPEGSKPRTVWGVGLAEAMSEADLKQGDQVRLEDLGTQPVVVQVIE
ENGTVTDKTVNRREWSAQPVAPEREVAETTPKGQAAAAGTPELSSPDEDDGMSVD
MLIRVSGYNTGAQEYLEQGNKSGREFTRDELDHRLIIEGQLSVTRAIYESIPDHGQDRYLTFTLSFKEDT
VSPELLKAVTTDFKNFFMHAYKPEEFNLYAEAHLPKMKTVTDRKTGEVIDRKPHIHIIIPRINLLSGNEA
NPVDVYKNHEKYFEAFQEHINQKYGLSSPRENVRADITDAASVLSRYKGDDFYGKNRQFKQQLVKQVIER
GVTSRADFYALVAEHGETRIRNEGKDNEYISVKLPGDAKGTNLKDTIFQDAFIVRRELKKPPLEASVIQE
RLLAWPQRAREIKYVNKATPKFRKQYSQASPEERVRLLAERETNFYRAHGDDYESVHTWQRQRDNQRSPA
ETTGRRTAAPADGLQDLSVSDVADHRQAGPTRSRDGALLLPSDAHVHVGQSQPGGDSGLRSSVPGGGRGR
RVGSTAERGRGGSQPAAVSQETKGTATPAGATGRRRAGAGKPRNTRVRAGRVVPPYAQNPHRVATIADIE
ERGRRLFDPLKWPSDNALVFYRSSSHPQVADQLPRATAATTTPVQSTAGRRPRSSGKPRPPRQWRPGAVP
PYAKNPHRVATVADIEQRARMLFDPLKRPADKALVFKRASIKALTVNKHASTVAAYFTRQAQHNQIAPAH
RRAIRRIDQQYFALRRAVFSDQRLTRQDKAQLVSVLTFERLKAREQFHKSQPNIEVNLMGSAAIRNLLDD
EKEDPGFSISGARGPGREGVRDQVKRIMDRFAKQVDPVAASERARDLSAKDLYTRKAKFSQNVHYLDKQT
DKTLFVDTGTTISMRRTGITEAGVSVALQLARERFGSTLTINGTAEFKKLVIEAVAKNGLDVHFTDKAMN
QSLADRRAELDIERGGQSIGPATDLPRHVDDATRDVRDQADRLGVTVPIEAMYGQGKTADQVSQALATQL
DTVPEPERIAFVETVAITLAIPERGEPKGDQAFAQWQSQRAQPAADSAATATTEMQTAVPMPSDAAPEPM
SPEAEMPTLANDPALQSPSELVRLEAQWRRDFPMSEADVRASDTVMGLRGEDHAVWIIATNDKTPEAAAM
LTAYMENDSYREAFKASIVAAYKQVENSPKLVDDLDHLTAMAAQIVNEVEDRLYPAPQASSESTNKIIEG
TLIEHGEAPYQHNDDNQMSYFVTLKPEGSKPRTVWGVGLAEAMSEADLKQGDQVRLEDLGTQPVVVQVIE
ENGTVTDKTVNRREWSAQPVAPEREVAETTPKGQAAAAGTPELSSPDEDDGMSVD
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4CP
| ID | 2771 | GenBank | WP_003436833 |
| Name | t4cp2_POR16_RS26045_pPor1_6 |
UniProt ID | _ |
| Length | 550 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 550 a.a. Molecular weight: 61380.00 Da Isoelectric Point: 6.4226
>WP_003436833.1 MULTISPECIES: type IV secretory system conjugative DNA transfer family protein [Pseudomonas syringae group]
MARAKSKPISPTNPQKRIDEYPAFLLGKHPTEDSFLASYGQQFVMLAAPPGTGKGVGAVIPNLLSYPDSM
VVNDPKFENWEITSGFRAAAGHKVYRFSPERLETHRWNPLSAINRDPLYRLGEIRTIARVLFVSDNPKNQ
EWYNKAGNVFTAVLLFLMETPEMPFTLPQAYEIGSLGTGMGTWAQQIIELRSTGPNALSFEALRELNGVF
EASKNKSSGWSTTVDIVRDVLSVYAEKTVAWAVSGDDIDLSKAREEKMTAYFSVTEGSLKKYGPLMNLFF
TQAIRLNSKVIPEQGGHCADGTLRYKYQLALLMDELAIMGRIEILETAPALTRGAGLRFFFIFQGKDQLR
AIYGEEAANAIMKAIHNEIVFAPGDIKLAEEYSRRLGNTTVRVHNQSLNRQKHQVGAQGQTDSYSEQPRP
LMLPQDINELPYDKQLIFVQGTKTTPALKILARKIFYYEEEVFRSREKLPPPPLPVGDASKIDALTVPVR
TIEAKVAVADAKPMQAEQRQRWNPKEKASEVAQAEADKAQPVEVEPDPEPVQADDTSEPM
MARAKSKPISPTNPQKRIDEYPAFLLGKHPTEDSFLASYGQQFVMLAAPPGTGKGVGAVIPNLLSYPDSM
VVNDPKFENWEITSGFRAAAGHKVYRFSPERLETHRWNPLSAINRDPLYRLGEIRTIARVLFVSDNPKNQ
EWYNKAGNVFTAVLLFLMETPEMPFTLPQAYEIGSLGTGMGTWAQQIIELRSTGPNALSFEALRELNGVF
EASKNKSSGWSTTVDIVRDVLSVYAEKTVAWAVSGDDIDLSKAREEKMTAYFSVTEGSLKKYGPLMNLFF
TQAIRLNSKVIPEQGGHCADGTLRYKYQLALLMDELAIMGRIEILETAPALTRGAGLRFFFIFQGKDQLR
AIYGEEAANAIMKAIHNEIVFAPGDIKLAEEYSRRLGNTTVRVHNQSLNRQKHQVGAQGQTDSYSEQPRP
LMLPQDINELPYDKQLIFVQGTKTTPALKILARKIFYYEEEVFRSREKLPPPPLPVGDASKIDALTVPVR
TIEAKVAVADAKPMQAEQRQRWNPKEKASEVAQAEADKAQPVEVEPDPEPVQADDTSEPM
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 26230..36579
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| POR16_RS25935 (POR16_25935) | 21760..22008 | + | 249 | WP_003436790 | type II toxin-antitoxin system prevent-host-death family antitoxin | - |
| POR16_RS25940 (POR16_25940) | 22021..22371 | + | 351 | WP_003436792 | type II toxin-antitoxin system RelE/ParE family toxin | - |
| POR16_RS25945 (POR16_25945) | 22474..23247 | - | 774 | WP_003436798 | helix-turn-helix transcriptional regulator | - |
| POR16_RS25950 (POR16_25950) | 23356..24456 | + | 1101 | WP_003436801 | polyamine ABC transporter substrate-binding protein | - |
| POR16_RS25955 (POR16_25955) | 24555..24752 | + | 198 | WP_003436803 | hypothetical protein | - |
| POR16_RS25960 (POR16_25960) | 24764..25159 | - | 396 | WP_003436805 | helix-turn-helix transcriptional regulator | - |
| POR16_RS25965 (POR16_25965) | 25374..25886 | + | 513 | WP_003436807 | transcription termination/antitermination NusG family protein | - |
| POR16_RS25970 (POR16_25970) | 25975..26217 | + | 243 | WP_003436809 | hypothetical protein | - |
| POR16_RS25975 (POR16_25975) | 26230..26937 | + | 708 | WP_003436811 | lytic transglycosylase domain-containing protein | virB1 |
| POR16_RS25980 (POR16_25980) | 26937..27272 | + | 336 | WP_003407111 | hypothetical protein | - |
| POR16_RS25985 (POR16_25985) | 27285..27761 | + | 477 | WP_003436813 | VirB3 family type IV secretion system protein | virB3 |
| POR16_RS25990 (POR16_25990) | 27700..30174 | + | 2475 | WP_032610011 | VirB4 family type IV secretion system protein | virb4 |
| POR16_RS25995 (POR16_25995) | 30171..30857 | + | 687 | WP_005892632 | P-type DNA transfer protein VirB5 | - |
| POR16_RS26000 (POR16_26000) | 30890..31243 | + | 354 | WP_003436819 | hypothetical protein | - |
| POR16_RS26005 (POR16_26005) | 31254..32186 | + | 933 | WP_003436821 | type IV secretion system protein | virB6 |
| POR16_RS26010 (POR16_26010) | 32254..32556 | + | 303 | WP_003436825 | hypothetical protein | - |
| POR16_RS26015 (POR16_26015) | 32594..33382 | + | 789 | WP_003436826 | type IV secretion system protein | virB8 |
| POR16_RS26020 (POR16_26020) | 33372..34181 | + | 810 | WP_003436827 | P-type conjugative transfer protein VirB9 | virB9 |
| POR16_RS26025 (POR16_26025) | 34168..35538 | + | 1371 | WP_003436828 | TrbI/VirB10 family protein | virB10 |
| POR16_RS26030 (POR16_26030) | 35548..36579 | + | 1032 | WP_003436829 | P-type DNA transfer ATPase VirB11 | virB11 |
| POR16_RS26035 (POR16_26035) | 36589..36945 | + | 357 | WP_003436831 | hypothetical protein | - |
| POR16_RS26040 (POR16_26040) | 37072..37293 | + | 222 | WP_003436832 | hypothetical protein | - |
| POR16_RS26045 (POR16_26045) | 37293..38945 | + | 1653 | WP_003436833 | type IV secretory system conjugative DNA transfer family protein | - |
| POR16_RS26050 (POR16_26050) | 38985..39347 | + | 363 | WP_003436834 | TrbM/KikA/MpfK family conjugal transfer protein | - |
| POR16_RS26055 (POR16_26055) | 39375..41540 | + | 2166 | WP_003436835 | type IA DNA topoisomerase | - |
Host bacterium
| ID | 4370 | GenBank | NZ_CP046036 |
| Plasmid name | pPor1_6 | Incompatibility group | - |
| Plasmid size | 51521 bp | Coordinate of oriT [Strand] | 45224..45404 [+] |
| Host baterium | Pseudomonas coronafaciens pv. oryzae str. 1_6 |
Cargo genes
| Drug resistance gene | - |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |