Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 103250 |
| Name | oriT_pPs6-9  |
| Organism | Pseudomonas syringae pv. syringae strain 6-9 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_KY362369 (55278..55457 [+], 180 nt) |
| oriT length | 180 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: 180 nt
>oriT_pPs6-9
ATCTCGAATTCGCTAAACAGGCACGTTACCGATTGTCTACAAAAAAGAGCTTCGCCTTTTTCGTATCCAATCGACGTGCCAAAGGGGATACCCCTTTGAAACCCCGCAGAGCGGGAAAGCGTTGTCGTTGTCGTTGTTGGTTGTTGTCATCCAGGTGCCCTCAGGAGGTGATTTTGTGGC
ATCTCGAATTCGCTAAACAGGCACGTTACCGATTGTCTACAAAAAAGAGCTTCGCCTTTTTCGTATCCAATCGACGTGCCAAAGGGGATACCCCTTTGAAACCCCGCAGAGCGGGAAAGCGTTGTCGTTGTCGTTGTTGGTTGTTGTCATCCAGGTGCCCTCAGGAGGTGATTTTGTGGC
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 2429 | GenBank | WP_080034374 |
| Name | Relaxase_HTL53_RS00310_pPs6-9 |
UniProt ID | _ |
| Length | 1249 a.a. | PDB ID | |
| Note | Predicted by oriTfinder 2.0 | ||
Relaxase protein sequence
Download Length: 1249 a.a. Molecular weight: 138620.90 Da Isoelectric Point: 9.1124
>WP_080034374.1 MULTISPECIES: LPD7 domain-containing protein [Pseudomonas syringae group]
MLIRVSGYNTGAQEYLEQGNKSGREFTRDELDHRLIIEGQLSVTRAIYESIPDHGQDRYLTFTLSFKEDT
VSPELLKAVTTEFKNFFMHAYKPEEFNLYAEAHLPKMKTVTNRKTGEVIDRKPHIHIIIPRINLLSGNEA
NPVDVYKNHEKYFEAFQEHINQKYGLSSPRENVRADITDAASVLSRYKGDDFYGKNRQFKQQLVKQVIER
GVNSRADFYALVAEHGETRIRNEGKDNEYISVKLPGDAKGTNLKDTIFQDDFIVRRELRKPPLEASVIQE
RLLAWPQRAREIKYVNKATPKFRKQYSQASPEERVRLLAERETNFYRAHGDDYESVHTWQRQRDNQRSPA
ETTGRRTAAPADGLQDLSVSDVADHRQAGPTRSRDGALLLPSDAHVHVGQSQPGGDSGLRSSVPGGGRGR
RAGSTAERGRGGSQPAAVSQETKGTATPAGATGRRRAGAGKSRNTRVRAGRVVPPYAQNPHRVATIADIE
ERGRRLFDPLKRPSDNALVFYRSSSHPQVADQLPQARAATTTPVQSTAGRRPRSSGKPRPPRQWRPGAVP
PYAKNPHRVATVADIEQRARMLFDPLKRPADKALVFKRASIKALTVNKHASTVAAYFTRQAQHNQIAPAH
RRAIRRIDQQYFALRRAVFSDQRLTRQDKAQLVSVLTFERLKAREQFHKPQPNIEVNLMGSAAIRNLLDD
EKEDPGFSISGARGPGREGVRDQVKRIMDRFAKQVDPDAATERARDLSAKDLYTRKAKFSQNVHYLDKQT
DKTLFVDTGTTISMRRTGITEAGVSVALQLARERFGSTLTINGTAEFKKLVIEAVAKNGLDVHFTDKAMN
QSLADRRAELDIERDGQSIGPATDLPRHVDDATRDVRDQADRLGVTVPIEALYGQGKTADQVSQALTAQL
DTVPESERIAFVETVAITLGIPERGQPKGDQAFAQWQAQRAQPAANSAASATSEAQANVPTPSDAVPEPV
IPEAAKPALVNDPDLQSPSELVRLEAQWRRDFPMSEADVRASDTVMGLRGEDHAIWIIATDDKTPEAAAL
LTAYMENDSYREAFKASIVAAYKQVENSPQSVDDLDHLTAMAAQIVNEVEERLFPSPQAATGQTAPSRSK
VIEGTLIDHGEAPYQHNDDNQMSYFVTLKPEGGKPRTVWGVGLEEAMSDADLKQGDQVRLRDLGTQPVVV
QVIEEDGTVTDKTVNRREWSAQPVAPEREVAETTPKGQAAAAGTPELSSPDEDDGMSVD
MLIRVSGYNTGAQEYLEQGNKSGREFTRDELDHRLIIEGQLSVTRAIYESIPDHGQDRYLTFTLSFKEDT
VSPELLKAVTTEFKNFFMHAYKPEEFNLYAEAHLPKMKTVTNRKTGEVIDRKPHIHIIIPRINLLSGNEA
NPVDVYKNHEKYFEAFQEHINQKYGLSSPRENVRADITDAASVLSRYKGDDFYGKNRQFKQQLVKQVIER
GVNSRADFYALVAEHGETRIRNEGKDNEYISVKLPGDAKGTNLKDTIFQDDFIVRRELRKPPLEASVIQE
RLLAWPQRAREIKYVNKATPKFRKQYSQASPEERVRLLAERETNFYRAHGDDYESVHTWQRQRDNQRSPA
ETTGRRTAAPADGLQDLSVSDVADHRQAGPTRSRDGALLLPSDAHVHVGQSQPGGDSGLRSSVPGGGRGR
RAGSTAERGRGGSQPAAVSQETKGTATPAGATGRRRAGAGKSRNTRVRAGRVVPPYAQNPHRVATIADIE
ERGRRLFDPLKRPSDNALVFYRSSSHPQVADQLPQARAATTTPVQSTAGRRPRSSGKPRPPRQWRPGAVP
PYAKNPHRVATVADIEQRARMLFDPLKRPADKALVFKRASIKALTVNKHASTVAAYFTRQAQHNQIAPAH
RRAIRRIDQQYFALRRAVFSDQRLTRQDKAQLVSVLTFERLKAREQFHKPQPNIEVNLMGSAAIRNLLDD
EKEDPGFSISGARGPGREGVRDQVKRIMDRFAKQVDPDAATERARDLSAKDLYTRKAKFSQNVHYLDKQT
DKTLFVDTGTTISMRRTGITEAGVSVALQLARERFGSTLTINGTAEFKKLVIEAVAKNGLDVHFTDKAMN
QSLADRRAELDIERDGQSIGPATDLPRHVDDATRDVRDQADRLGVTVPIEALYGQGKTADQVSQALTAQL
DTVPESERIAFVETVAITLGIPERGQPKGDQAFAQWQAQRAQPAANSAASATSEAQANVPTPSDAVPEPV
IPEAAKPALVNDPDLQSPSELVRLEAQWRRDFPMSEADVRASDTVMGLRGEDHAIWIIATDDKTPEAAAL
LTAYMENDSYREAFKASIVAAYKQVENSPQSVDDLDHLTAMAAQIVNEVEERLFPSPQAATGQTAPSRSK
VIEGTLIDHGEAPYQHNDDNQMSYFVTLKPEGGKPRTVWGVGLEEAMSDADLKQGDQVRLRDLGTQPVVV
QVIEEDGTVTDKTVNRREWSAQPVAPEREVAETTPKGQAAAAGTPELSSPDEDDGMSVD
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4CP
| ID | 2194 | GenBank | WP_010217011 |
| Name | t4cp2_HTL53_RS00265_pPs6-9 |
UniProt ID | _ |
| Length | 550 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 550 a.a. Molecular weight: 61600.27 Da Isoelectric Point: 6.0604
>WP_010217011.1 MULTISPECIES: type IV secretory system conjugative DNA transfer family protein [Pseudomonas syringae group]
MGKAKSKPISSTNPQERIEEYPAFLLGKHPTKDVFLASYGQQFVMLAAPPGSMKGVSAVIPNLLSYPDSM
VVNDPKFENWDITSGFRASAGHKVFRFSPERLETHRWNPVSAINRDPLYRLGDIRTLARVLFVSDNPKNQ
EWYNKAGNVFTSILLYLMETPEMPCTLPQAYEIGSLGTGIGTWAQQIIELRSIGPNALSFETLRELNGVY
EASKNKSSGWSTTVDIVRDVLSVYAEKTVAWAVSGDDIDFAKMREEKTTVYFSVTEGNLKKYGPLMNLFF
TQAIRLNSKVLPEQGGHCADGTLRYKYQLALMMDEFAIMGRMEIMETAPALTRGAGLRFFLIFQGKDQIR
AVYGEEAANGIMKAIHNEIVFAPGDIKLAEEYSRRLGNTTERVHNQSLNRQKNEIGARGQTDSYSEQARP
LLLPQEVNELPFDKQLIFVQGNRQTEPMKILARKIIYFEEDVFKARQKMTPPPLPVGDATKIDALTVPVR
TIEAKVAVADTKPMQAEQRQRWNPKEKAANAVPEQPDAAQPVDVEPDPEPAQADDTPETM
MGKAKSKPISSTNPQERIEEYPAFLLGKHPTKDVFLASYGQQFVMLAAPPGSMKGVSAVIPNLLSYPDSM
VVNDPKFENWDITSGFRASAGHKVFRFSPERLETHRWNPVSAINRDPLYRLGDIRTLARVLFVSDNPKNQ
EWYNKAGNVFTSILLYLMETPEMPCTLPQAYEIGSLGTGIGTWAQQIIELRSIGPNALSFETLRELNGVY
EASKNKSSGWSTTVDIVRDVLSVYAEKTVAWAVSGDDIDFAKMREEKTTVYFSVTEGNLKKYGPLMNLFF
TQAIRLNSKVLPEQGGHCADGTLRYKYQLALMMDEFAIMGRMEIMETAPALTRGAGLRFFLIFQGKDQIR
AVYGEEAANGIMKAIHNEIVFAPGDIKLAEEYSRRLGNTTERVHNQSLNRQKNEIGARGQTDSYSEQARP
LLLPQEVNELPFDKQLIFVQGNRQTEPMKILARKIIYFEEDVFKARQKMTPPPLPVGDATKIDALTVPVR
TIEAKVAVADTKPMQAEQRQRWNPKEKAANAVPEQPDAAQPVDVEPDPEPAQADDTPETM
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 36097..46294
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| HTL53_RS00160 | 31173..32288 | - | 1116 | WP_005782495 | hypothetical protein | - |
| HTL53_RS00165 | 32340..33113 | - | 774 | WP_005782492 | helix-turn-helix transcriptional regulator | - |
| HTL53_RS00170 | 33222..34322 | + | 1101 | WP_010199864 | polyamine ABC transporter substrate-binding protein | - |
| HTL53_RS00175 | 34421..34618 | + | 198 | WP_005782488 | hypothetical protein | - |
| HTL53_RS00180 | 34630..35025 | - | 396 | WP_005782487 | helix-turn-helix transcriptional regulator | - |
| HTL53_RS00185 | 35241..35753 | + | 513 | WP_010199861 | transcription termination/antitermination NusG family protein | - |
| HTL53_RS00190 | 35842..36084 | + | 243 | WP_005782484 | hypothetical protein | - |
| HTL53_RS00195 | 36097..36801 | + | 705 | WP_005782481 | lytic transglycosylase domain-containing protein | virB1 |
| HTL53_RS00200 | 36801..37136 | + | 336 | WP_005782479 | hypothetical protein | - |
| HTL53_RS00205 | 37149..37637 | + | 489 | WP_005782477 | VirB3 family type IV secretion system protein | virB3 |
| HTL53_RS00210 | 37564..40038 | + | 2475 | WP_005782475 | VirB4 family type IV secretion system protein | virb4 |
| HTL53_RS00215 | 40035..40715 | + | 681 | WP_005782474 | P-type DNA transfer protein VirB5 | - |
| HTL53_RS00220 | 40731..40937 | + | 207 | WP_005782472 | hypothetical protein | - |
| HTL53_RS00225 | 40964..41908 | + | 945 | WP_010199857 | type IV secretion system protein | virB6 |
| HTL53_RS00230 | 42309..43097 | + | 789 | WP_010199854 | type IV secretion system protein | virB8 |
| HTL53_RS00235 | 43087..43896 | + | 810 | WP_005782466 | P-type conjugative transfer protein VirB9 | virB9 |
| HTL53_RS00240 | 43883..45253 | + | 1371 | WP_010199849 | TrbI/VirB10 family protein | virB10 |
| HTL53_RS00245 | 45263..46294 | + | 1032 | WP_005782462 | P-type DNA transfer ATPase VirB11 | virB11 |
| HTL53_RS00250 | 46304..46660 | + | 357 | WP_010217013 | hypothetical protein | - |
| HTL53_RS00255 | 46780..47097 | + | 318 | WP_005782454 | hypothetical protein | - |
| HTL53_RS00260 | 47107..47340 | + | 234 | WP_005782456 | hypothetical protein | - |
| HTL53_RS00265 | 47340..48992 | + | 1653 | WP_010217011 | type IV secretory system conjugative DNA transfer family protein | - |
| HTL53_RS00270 | 49033..49395 | + | 363 | WP_005782555 | TrbM/KikA/MpfK family conjugal transfer protein | - |
Host bacterium
| ID | 3693 | GenBank | NZ_KY362369 |
| Plasmid name | pPs6-9 | Incompatibility group | - |
| Plasmid size | 61606 bp | Coordinate of oriT [Strand] | 55278..55457 [+] |
| Host baterium | Pseudomonas syringae pv. syringae strain 6-9 |
Cargo genes
| Drug resistance gene | - |
| Virulence gene | - |
| Metal resistance gene | copS, copR, cueA, cusA/ybdE, copC, copA |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |