Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 102866 |
| Name | oriT1_pSTY3-1898  |
| Organism | Salmonella enterica subsp. enterica serovar Typhimurium str. USDA-ARS-USMARC-1898 isolate ST073 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_CP014974 (1982..2330 [+], 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
>oriT1_pSTY3-1898
ACTGCGATGCAGGATAGGGCAAACGCCGCAAAATGACGTCTCTGACGCCATTCCGCAACGTTTGCCCGATGACCTACAGTCGGTTCTTGTTGGAGAGTTTTATGAAATATTTGGTCAAAGAGTTTATTAACGAAAAATATACTAAGGCTGTTAATATTTTAAAGGATAACCTTAAAGAACACTATCATGTTTTTTATTGTGTGAGATTAAGTGAGATTCTTTTTCCTGCCAGTGAATATGGAACTGAACAGTTTTTTAGTGATTTTGAAAAGATAAACTCCATTTCATTACCTGTCTTAGTGTTTGATCTCAAAGAGGGTGTTCCTGTGATTGTCATTAGTCTTGATGA
ACTGCGATGCAGGATAGGGCAAACGCCGCAAAATGACGTCTCTGACGCCATTCCGCAACGTTTGCCCGATGACCTACAGTCGGTTCTTGTTGGAGAGTTTTATGAAATATTTGGTCAAAGAGTTTATTAACGAAAAATATACTAAGGCTGTTAATATTTTAAAGGATAACCTTAAAGAACACTATCATGTTTTTTATTGTGTGAGATTAAGTGAGATTCTTTTTCCTGCCAGTGAATATGGAACTGAACAGTTTTTTAGTGATTTTGAAAAGATAAACTCCATTTCATTACCTGTCTTAGTGTTTGATCTCAAAGAGGGTGTTCCTGTGATTGTCATTAGTCTTGATGA
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 2143 | GenBank | WP_000539540 |
| Name | Relaxase_AX01_RS25590_pSTY3-1898 |
UniProt ID | A0A744DX50 |
| Length | 388 a.a. | PDB ID | |
| Note | Predicted by oriTfinder 2.0 | ||
Relaxase protein sequence
Download Length: 388 a.a. Molecular weight: 44505.86 Da Isoelectric Point: 10.5067
>WP_000539540.1 MULTISPECIES: MobP1 family relaxase [Enterobacteriaceae]
MGVYVDKEYRVKRKSSENGRKSAFAHKVKNGGKNYSRNVQERINRKGASKEVVVKISGGAVTRQGIRNSI
DYMSRESELPVMSESGRVWTGDEILEAKEHMIDRANDPQHVMNDKGKENKKITQNIVFSPPVSAKVKPED
LLESVRKTMQKKYPNHRFVLGYHCDKKEHPHVHVVFRIRDNDGKRADIRKKDLREIRTGFCEELKLKGYD
VKATHKQQHGLNQSVKDAHNTAPKRQKGVYEVVDIGYDHYQNDKTKSKQHFIKLKTLNKGVEKTYWGADF
GDLCSRESVKAGDLVRLKKLGQKEVKIPALDKNGVQHGWKTVHRNEWQLENLGVKGVDRTPSASKELVLN
SPDMLLKQQQRMAQFTQQKASTLQSEQKLKTGIKFWGL
MGVYVDKEYRVKRKSSENGRKSAFAHKVKNGGKNYSRNVQERINRKGASKEVVVKISGGAVTRQGIRNSI
DYMSRESELPVMSESGRVWTGDEILEAKEHMIDRANDPQHVMNDKGKENKKITQNIVFSPPVSAKVKPED
LLESVRKTMQKKYPNHRFVLGYHCDKKEHPHVHVVFRIRDNDGKRADIRKKDLREIRTGFCEELKLKGYD
VKATHKQQHGLNQSVKDAHNTAPKRQKGVYEVVDIGYDHYQNDKTKSKQHFIKLKTLNKGVEKTYWGADF
GDLCSRESVKAGDLVRLKKLGQKEVKIPALDKNGVQHGWKTVHRNEWQLENLGVKGVDRTPSASKELVLN
SPDMLLKQQQRMAQFTQQKASTLQSEQKLKTGIKFWGL
Protein domains
Predicted by InterproScan.
Protein structure
| Source | ID | Structure |
|---|---|---|
| AlphaFold DB | A0A744DX50 |
T4CP
| ID | 1809 | GenBank | WP_000053820 |
| Name | t4cp2_AX01_RS25525_pSTY3-1898 |
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: 19661..29622
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| AX01_RS25510 (AX01_24150) | 16228..16803 | - | 576 | WP_063320189 | hypothetical protein | - |
| AX01_RS25955 | 16807..17001 | - | 195 | Protein_20 | ATP-binding protein | - |
| AX01_RS25515 (AX01_25915) | 17114..17416 | - | 303 | WP_000717627 | TrbM/KikA/MpfK family conjugal transfer protein | - |
| AX01_RS25520 (AX01_25920) | 17413..17826 | - | 414 | WP_024136126 | cag pathogenicity island Cag12 family protein | - |
| AX01_RS25525 (AX01_24155) | 17823..19658 | - | 1836 | WP_000053820 | type IV secretory system conjugative DNA transfer family protein | - |
| AX01_RS25530 (AX01_24160) | 19661..20692 | - | 1032 | WP_001058468 | P-type DNA transfer ATPase VirB11 | virB11 |
| AX01_RS25535 (AX01_24165) | 20694..21899 | - | 1206 | WP_031622284 | VirB10/TraB/TrbI family type IV secretion system protein | virB10 |
| AX01_RS25540 (AX01_24170) | 21896..22825 | - | 930 | WP_000783385 | TrbG/VirB9 family P-type conjugative transfer protein | virB9 |
| AX01_RS25545 (AX01_24175) | 22830..23543 | - | 714 | WP_000394612 | type IV secretion system protein | virB8 |
| AX01_RS25550 (AX01_24180) | 23789..24922 | - | 1134 | WP_000513458 | type IV secretion system protein | virB6 |
| AX01_RS25555 (AX01_24185) | 24932..25159 | - | 228 | WP_000835348 | EexN family lipoprotein | - |
| AX01_RS25560 (AX01_24190) | 25160..25918 | - | 759 | WP_000744210 | type IV secretion system protein | - |
| AX01_RS25565 (AX01_24195) | 25929..28682 | - | 2754 | WP_065327995 | VirB3 family type IV secretion system protein | virb4 |
| AX01_RS25570 (AX01_24200) | 28701..28997 | - | 297 | WP_000916182 | TrbC/VirB2 family protein | virB2 |
| AX01_RS25575 (AX01_24205) | 28975..29622 | - | 648 | WP_063320191 | lytic transglycosylase domain-containing protein | virB1 |
| AX01_RS25580 (AX01_24210) | 29655..29867 | - | 213 | WP_000125172 | hypothetical protein | - |
| AX01_RS25585 (AX01_25925) | 29797..30315 | - | 519 | WP_001446885 | transcription termination/antitermination NusG family protein | - |
| AX01_RS25590 (AX01_24215) | 30668..31834 | - | 1167 | WP_000539540 | MobP1 family relaxase | - |
| AX01_RS25595 (AX01_24220) | 31837..32382 | - | 546 | WP_000757693 | DNA distortion polypeptide 1 | - |
| AX01_RS25600 (AX01_25930) | 32708..32980 | - | 273 | WP_000160399 | hypothetical protein | - |
| AX01_RS25960 | 32993..33142 | - | 150 | WP_000003877 | hypothetical protein | - |
| AX01_RS25605 (AX01_24230) | 33212..33391 | - | 180 | WP_021526659 | hypothetical protein | - |
| AX01_RS25610 (AX01_24235) | 33434..33763 | - | 330 | WP_000866654 | hypothetical protein | - |
| AX01_RS25615 (AX01_24240) | 33856..34071 | - | 216 | WP_001180117 | hypothetical protein | - |
| AX01_RS25620 (AX01_24245) | 34061..34306 | - | 246 | WP_000356542 | hypothetical protein | - |
Host bacterium
| ID | 3309 | GenBank | NZ_CP014974 |
| Plasmid name | pSTY3-1898 | Incompatibility group | IncX1 |
| Plasmid size | 35954 bp | Coordinate of oriT [Strand] | 1982..2330 [+]; 32162..32768 [+] |
| Host baterium | Salmonella enterica subsp. enterica serovar Typhimurium str. USDA-ARS-USMARC-1898 isolate ST073 |
Cargo genes
| Drug resistance gene | - |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |