Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 102920 |
| Name | oriT_pQJDsal1  |
| Organism | Salmonella enterica subsp. enterica serovar Pullorum strain QJ-2D-Sal |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_CP022964 (27434..27782 [-], 349 nt) |
| oriT length | 349 nt |
| IRs (inverted repeats) | 134..140, 154..160 (AAAATAT..ATATTTT) |
| Location of nic site | _ |
| Conserved sequence flanking the nic site |
_ |
| Note | Predicted by oriTfinder 2.0 |
oriT sequence
Download Length: 349 nt
>oriT_pQJDsal1
ACTGCGATGCAGGATAGGGCAAACGCCGCAAAATGACGTCTCTGACGCCATTCCGCAACGTTTGCCCGGTGACCTACAGTCGGTTCTTGTTGGAGAGTTTTATGAAATATTTGGTCAAAGAGTTTATTAACGAAAAATATACTAAGGCTGTTAATATTTTAAAGGATAACCTTAAAGAACACTATCATGTTTTTTATTGTGTGAGATTAAGTGAGATTCTTTTTCCTGCCAGTGAATATGGAACTGAACAGTTTTTTAGTGATTTTGAAAAGATAAACTCCATTTCATTACCTGTCTTAGTGTTTGATCTCAAAGAGGGTGTTCCTGTGATTGTCATTAGTCTTGATGA
ACTGCGATGCAGGATAGGGCAAACGCCGCAAAATGACGTCTCTGACGCCATTCCGCAACGTTTGCCCGGTGACCTACAGTCGGTTCTTGTTGGAGAGTTTTATGAAATATTTGGTCAAAGAGTTTATTAACGAAAAATATACTAAGGCTGTTAATATTTTAAAGGATAACCTTAAAGAACACTATCATGTTTTTTATTGTGTGAGATTAAGTGAGATTCTTTTTCCTGCCAGTGAATATGGAACTGAACAGTTTTTTAGTGATTTTGAAAAGATAAACTCCATTTCATTACCTGTCTTAGTGTTTGATCTCAAAGAGGGTGTTCCTGTGATTGTCATTAGTCTTGATGA
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 2192 | GenBank | WP_000539538 |
| Name | Relaxase_CJD41_RS24200_pQJDsal1 |
UniProt ID | A0A5J2A6K9 |
| Length | 388 a.a. | PDB ID | |
| Note | Predicted by oriTfinder 2.0 | ||
Relaxase protein sequence
Download Length: 388 a.a. Molecular weight: 44507.83 Da Isoelectric Point: 10.5067
>WP_000539538.1 MULTISPECIES: MobP1 family relaxase [Enterobacterales]
MGVYVDKEYRVKRKSSENGRKSAFAHKVKNGGKNYSRNVQERINRKGASKEVVVKISGGAVTRQGIRNSI
DYMSRESELPVMSESGRVWTGDEILEAKDHMIDRANDPQHVMNDKGKENKKITQNIVFSPPVSAKVKPED
LLESVRKTMQKKYPNHRFVLGYHCDKKEHPHVHVVFRIRDNDGKRADIRKKDLREIRTGFCEELKLKGYD
VKATHKQQHGLNQSVKDAHNTAPKRQKGVYEVVDVGYDHYQNDKTKSKQHFIKLKTLNKGVEKTYWGADF
GDLCSRESVKAGDLVRLKKLGQKEVKIPALDKNGVQHGWKTVHRNEWQLENLGVKGVDRTPSASKELVLN
SPDMLLKQQQRMAQFTQQKASTLQSEQKLKTGIKFWSL
MGVYVDKEYRVKRKSSENGRKSAFAHKVKNGGKNYSRNVQERINRKGASKEVVVKISGGAVTRQGIRNSI
DYMSRESELPVMSESGRVWTGDEILEAKDHMIDRANDPQHVMNDKGKENKKITQNIVFSPPVSAKVKPED
LLESVRKTMQKKYPNHRFVLGYHCDKKEHPHVHVVFRIRDNDGKRADIRKKDLREIRTGFCEELKLKGYD
VKATHKQQHGLNQSVKDAHNTAPKRQKGVYEVVDVGYDHYQNDKTKSKQHFIKLKTLNKGVEKTYWGADF
GDLCSRESVKAGDLVRLKKLGQKEVKIPALDKNGVQHGWKTVHRNEWQLENLGVKGVDRTPSASKELVLN
SPDMLLKQQQRMAQFTQQKASTLQSEQKLKTGIKFWSL
Protein domains
Predicted by InterproScan.
Protein structure
| Source | ID | Structure |
|---|---|---|
| AlphaFold DB | A0A5J2A6K9 |
T4CP
| ID | 1866 | GenBank | WP_237218661 |
| Name | t4cp2_CJD41_RS25605_pQJDsal1 |
UniProt ID | _ |
| Length | 314 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 314 a.a. Molecular weight: 36287.43 Da Isoelectric Point: 4.8662
>WP_237218661.1 hypothetical protein [Salmonella enterica]
MKEGEPTGWNPAALPPTKRNIAFMKDLVRLLCTLNSEPLDDYQNSLISDAVERLMQRSDRSYPISKLRPL
IQEPDDTETKRHGLKARLKPWTQGEEFGWVFDNREDTFDVDNLDVFGIDGTEFLDNKVLASAASFYLIYR
VTMLADGRRLLIYMDEFWQWINNEAFRDFVYNKLKTGRKLDMVLVVATQSPDELIKSPIAAAVREQCATH
IYLANPKAKRSEYVDGLQVRELYFDKIKAIDPLSRQFLVVKNPQRKGESDDFAAFARLELGKAAYYLPVL
SASKPQLELFDDIWKEGMKPEEWLDTYLEQANLI
MKEGEPTGWNPAALPPTKRNIAFMKDLVRLLCTLNSEPLDDYQNSLISDAVERLMQRSDRSYPISKLRPL
IQEPDDTETKRHGLKARLKPWTQGEEFGWVFDNREDTFDVDNLDVFGIDGTEFLDNKVLASAASFYLIYR
VTMLADGRRLLIYMDEFWQWINNEAFRDFVYNKLKTGRKLDMVLVVATQSPDELIKSPIAAAVREQCATH
IYLANPKAKRSEYVDGLQVRELYFDKIKAIDPLSRQFLVVKNPQRKGESDDFAAFARLELGKAAYYLPVL
SASKPQLELFDDIWKEGMKPEEWLDTYLEQANLI
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
| ID | 1867 | GenBank | WP_000053820 |
| Name | t4cp2_CJD41_RS24265_pQJDsal1 |
UniProt ID | _ |
| Length | 611 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 611 a.a. Molecular weight: 69389.23 Da Isoelectric Point: 7.1491
>WP_000053820.1 MULTISPECIES: type IV secretory system conjugative DNA transfer family protein [Enterobacteriaceae]
MSLKLPDKGQWAFIGLVMCLVTYYTGSVAVYFLNGKTPLYIWKNFDSMLLWRIITESNIRTDIRLTAIPS
LLSGMVSSLIVPVFIIWQLNKTDVALYGDAKFASDNDLRKSKLLKWEKENDTDILVGAYKGKYLWYTAPD
FVSLGAGTRAGKGAAIGIPNLLVRKHSLIALDPKQELWKITSKVREILLGNKVYLLDPFNSKTHQFNPLF
YIDLKAESGAKDLLKLIEILFPSYGMTGAEAHFNNLAGQYWTGLAKLLHFFINYEPSWLNEFGLKPVFSI
GSVVDLYSNIDRELILSKREELEGTNGLDENALYHLRDALTKIREYHETEDEQRSSIDGSFRKKMSLFYL
PTVRKCTDGNDFDLRQLRREDITVYVGVNAEDISLAYDFLNLFFNFVVEVTLRENPDFDPTLKHDCLMFL
DEFPSIGYMPIIKKGSGYIAGFKLKLLTIYQNISQLNEIYGIEGAKTLMSAHPCRIIYAVSEEDDAAKIS
EKLGYITTTSKSTSKSRGRSTSQGESESEARRALVLPQELGTLDFKEEFIILKGENPVKAEKALYYLDPY
FMDRLMKVSPKLASLTMELNKTKKIFGVKGLKYPSKEKMLSVGELESEVLL
MSLKLPDKGQWAFIGLVMCLVTYYTGSVAVYFLNGKTPLYIWKNFDSMLLWRIITESNIRTDIRLTAIPS
LLSGMVSSLIVPVFIIWQLNKTDVALYGDAKFASDNDLRKSKLLKWEKENDTDILVGAYKGKYLWYTAPD
FVSLGAGTRAGKGAAIGIPNLLVRKHSLIALDPKQELWKITSKVREILLGNKVYLLDPFNSKTHQFNPLF
YIDLKAESGAKDLLKLIEILFPSYGMTGAEAHFNNLAGQYWTGLAKLLHFFINYEPSWLNEFGLKPVFSI
GSVVDLYSNIDRELILSKREELEGTNGLDENALYHLRDALTKIREYHETEDEQRSSIDGSFRKKMSLFYL
PTVRKCTDGNDFDLRQLRREDITVYVGVNAEDISLAYDFLNLFFNFVVEVTLRENPDFDPTLKHDCLMFL
DEFPSIGYMPIIKKGSGYIAGFKLKLLTIYQNISQLNEIYGIEGAKTLMSAHPCRIIYAVSEEDDAAKIS
EKLGYITTTSKSTSKSRGRSTSQGESESEARRALVLPQELGTLDFKEEFIILKGENPVKAEKALYYLDPY
FMDRLMKVSPKLASLTMELNKTKKIFGVKGLKYPSKEKMLSVGELESEVLL
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 36924..46882
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| CJD41_RS24160 (CJD41_24345) | 32241..32486 | + | 246 | WP_000356546 | hypothetical protein | - |
| CJD41_RS24165 (CJD41_24350) | 32476..32718 | + | 243 | WP_075330262 | hypothetical protein | - |
| CJD41_RS24170 (CJD41_24355) | 32783..33112 | + | 330 | WP_000866648 | hypothetical protein | - |
| CJD41_RS24175 (CJD41_24360) | 33155..33334 | + | 180 | WP_000439078 | hypothetical protein | - |
| CJD41_RS24180 (CJD41_24365) | 33404..33553 | + | 150 | WP_000003880 | hypothetical protein | - |
| CJD41_RS24185 (CJD41_24370) | 33566..33838 | + | 273 | WP_000160399 | hypothetical protein | - |
| CJD41_RS24195 (CJD41_24375) | 34164..34709 | + | 546 | WP_001426313 | DNA distortion polypeptide 1 | - |
| CJD41_RS24200 (CJD41_24380) | 34712..35878 | + | 1167 | WP_000539538 | MobP1 family relaxase | - |
| CJD41_RS24205 (CJD41_24385) | 36231..36749 | + | 519 | WP_001446885 | transcription termination/antitermination NusG family protein | - |
| CJD41_RS24210 (CJD41_24390) | 36679..36891 | + | 213 | WP_000125172 | hypothetical protein | - |
| CJD41_RS24215 (CJD41_24395) | 36924..37571 | + | 648 | WP_000953526 | lytic transglycosylase domain-containing protein | virB1 |
| CJD41_RS24220 (CJD41_24400) | 37549..37845 | + | 297 | WP_000916182 | TrbC/VirB2 family protein | virB2 |
| CJD41_RS24225 (CJD41_24405) | 37864..40616 | + | 2753 | Protein_51 | VirB3 family type IV secretion system protein | - |
| CJD41_RS24230 (CJD41_24410) | 40627..41385 | + | 759 | WP_000744200 | type IV secretion system protein | - |
| CJD41_RS24235 (CJD41_24415) | 41386..41613 | + | 228 | WP_000835349 | EexN family lipoprotein | - |
| CJD41_RS24240 (CJD41_24420) | 41623..42756 | + | 1134 | WP_000513457 | type IV secretion system protein | virB6 |
| CJD41_RS24245 (CJD41_24425) | 43001..43713 | + | 713 | Protein_55 | type IV secretion system protein | - |
| CJD41_RS24250 (CJD41_24430) | 43718..44647 | + | 930 | WP_000783379 | TrbG/VirB9 family P-type conjugative transfer protein | virB9 |
| CJD41_RS24255 (CJD41_24435) | 44644..45849 | + | 1206 | WP_000139139 | VirB10/TraB/TrbI family type IV secretion system protein | virB10 |
| CJD41_RS24260 (CJD41_24440) | 45851..46882 | + | 1032 | WP_001058468 | P-type DNA transfer ATPase VirB11 | virB11 |
| CJD41_RS24265 (CJD41_24445) | 46885..48720 | + | 1836 | WP_000053820 | type IV secretory system conjugative DNA transfer family protein | - |
| CJD41_RS24270 (CJD41_24450) | 48717..49130 | + | 414 | WP_000722611 | cag pathogenicity island Cag12 family protein | - |
| CJD41_RS24275 (CJD41_24455) | 49127..49429 | + | 303 | WP_000820908 | TrbM/KikA/MpfK family conjugal transfer protein | - |
| CJD41_RS24280 (CJD41_24460) | 49530..50855 | + | 1326 | WP_000869134 | YadA C-terminal domain-containing protein | - |
| CJD41_RS24285 (CJD41_24465) | 50884..51111 | + | 228 | WP_000803715 | hypothetical protein | - |
| CJD41_RS24290 (CJD41_24470) | 51191..51700 | + | 510 | WP_000691577 | thermonuclease family protein | - |
Host bacterium
| ID | 3363 | GenBank | NZ_CP022964 |
| Plasmid name | pQJDsal1 | Incompatibility group | IncX1 |
| Plasmid size | 67685 bp | Coordinate of oriT [Strand] | 27434..27782 [-] |
| Host baterium | Salmonella enterica subsp. enterica serovar Pullorum strain QJ-2D-Sal |
Cargo genes
| Drug resistance gene | - |
| Virulence gene | - |
| Metal resistance gene | arsA, arsH |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |