Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 111557 |
| Name | oriT_p12-4374_37  |
| Organism | Salmonella enterica subsp. enterica serovar Heidelberg strain 12-4374 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_CP012926 (33284..33890 [+], 607 nt) |
| oriT length | 607 nt |
| IRs (inverted repeats) | 590..595, 600..605 (ATGCCC..GGGCAT) 517..523, 529..535 (CCTCCCG..CGGGAGG) 453..458, 462..467 (GTTCGC..GCGAAC) 196..202, 204..210 (TCAATTC..GAATTGA) 175..180, 187..192 (AAATCA..TGATTT) 103..108, 120..125 (GCTAAA..TTTAGC) 79..84, 93..98 (GCTTTA..TAAAGC) 29..37, 46..54 (TTTTGATAA..TTATCAAAA) |
| Location of nic site | 313..314 |
| Conserved sequence flanking the nic site |
TCCTGCATCG |
| Note | Predicted by oriTfinder 2.0 |
oriT sequence
Download Length: 607 nt
>oriT_p12-4374_37
CTTTGTTTACCTGTTAAGTACATCGTTGTTTTGATAAAATCATTATTATCAAAAAACGTATTTATATCCTTACTGACAGCTTTACTTTTTAATAAAGCATTTGCTAAAAGTTTCATGCCTTTAGCTACTGTTAAAGCTGGTTCATCCGGATAAAGAGTTTTAAGGCAATCCAGCAAATCATCATGCTGATTTTCATCAATTCTGAATTGAACTTTTTTCATAAAATTCTCCAACAAGAACCGACTGTAGGTCACCGGGCAAATGTTGCGGAATGGCGTCAGAGACGTCATTTTGCGGCGTTTGCCCTATCCTGCATCGCAGTGAATCTGGCGCCGCTCATAAATTGTGCTTGAGCATCAACAAAAATGCAAAAAGGCTGATGTTGTCATGGCTGAACATACGTACGTCTGCGACCGGAAACCCGATCAATGCGGTAAGGACAGTGCCGTCAGGTTCGCTCCGCGAACGGTCTGGCAGGAAGCGCAAGCGCAGTCCCGCGCAATATATCAGAAAGCACCTCCCGAAATACGGGAGGGCTTCGGCTATTCAGCTAAGGTTGCTCTGTTCAGGTTGCTGAGTGTAGCCTTCCATGCCCTGACGGGCATCA
CTTTGTTTACCTGTTAAGTACATCGTTGTTTTGATAAAATCATTATTATCAAAAAACGTATTTATATCCTTACTGACAGCTTTACTTTTTAATAAAGCATTTGCTAAAAGTTTCATGCCTTTAGCTACTGTTAAAGCTGGTTCATCCGGATAAAGAGTTTTAAGGCAATCCAGCAAATCATCATGCTGATTTTCATCAATTCTGAATTGAACTTTTTTCATAAAATTCTCCAACAAGAACCGACTGTAGGTCACCGGGCAAATGTTGCGGAATGGCGTCAGAGACGTCATTTTGCGGCGTTTGCCCTATCCTGCATCGCAGTGAATCTGGCGCCGCTCATAAATTGTGCTTGAGCATCAACAAAAATGCAAAAAGGCTGATGTTGTCATGGCTGAACATACGTACGTCTGCGACCGGAAACCCGATCAATGCGGTAAGGACAGTGCCGTCAGGTTCGCTCCGCGAACGGTCTGGCAGGAAGCGCAAGCGCAGTCCCGCGCAATATATCAGAAAGCACCTCCCGAAATACGGGAGGGCTTCGGCTATTCAGCTAAGGTTGCTCTGTTCAGGTTGCTGAGTGTAGCCTTCCATGCCCTGACGGGCATCA
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 7506 | GenBank | WP_000539532 |
| Name | mobP1_APS45_RS23365_p12-4374_37 |
UniProt ID | K4NPN4 |
| Length | 388 a.a. | PDB ID | |
| Note | Predicted by oriTfinder 2.0 | ||
Relaxase protein sequence
Download Length: 388 a.a. Molecular weight: 44348.73 Da Isoelectric Point: 10.5588
>WP_000539532.1 MULTISPECIES: MobP1 family relaxase [Gammaproteobacteria]
MGVYVDKEHRVKRKSSENGRKSAFAHKVKNGGKNYSRNVQERINRKGASKEVVVKISGGAVTRQGIRNSI
DYMSRESELPVMSESGRVWTGDEILEAKEHMIDRANDPQHVMNDKGKENKKITQNIVFSPPVSAKVKPED
LLESVRKTMQKKYPNHRFVLGYHCDKKEHPHVHVVFRIRDNDGKRADIRKKDLREIRTGFCEELKLKGYD
VKATHKQQHGLNQSVKDAHNTAPKRQKGVYEVVDIGYDHYQNDKTKSKQHFIKLKTLNKGVEKTYWGADF
GGLCSRESVKAGDLVRLKKLGQKEVKIPALDKNGVQHGWKTVHRNEWQLENLGVKGVDRTPSASKELVLN
SPDMLLKQQQRMAQFTQQKASTLQSEQKLKTGIKFLGL
MGVYVDKEHRVKRKSSENGRKSAFAHKVKNGGKNYSRNVQERINRKGASKEVVVKISGGAVTRQGIRNSI
DYMSRESELPVMSESGRVWTGDEILEAKEHMIDRANDPQHVMNDKGKENKKITQNIVFSPPVSAKVKPED
LLESVRKTMQKKYPNHRFVLGYHCDKKEHPHVHVVFRIRDNDGKRADIRKKDLREIRTGFCEELKLKGYD
VKATHKQQHGLNQSVKDAHNTAPKRQKGVYEVVDIGYDHYQNDKTKSKQHFIKLKTLNKGVEKTYWGADF
GGLCSRESVKAGDLVRLKKLGQKEVKIPALDKNGVQHGWKTVHRNEWQLENLGVKGVDRTPSASKELVLN
SPDMLLKQQQRMAQFTQQKASTLQSEQKLKTGIKFLGL
Protein domains
Predicted by InterproScan.
Protein structure
| Source | ID | Structure |
|---|---|---|
| AlphaFold DB | K4NPN4 |
T4CP
| ID | 8550 | GenBank | WP_000053816 |
| Name | t4cp2_APS45_RS23305_p12-4374_37 |
UniProt ID | _ |
| Length | 611 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 611 a.a. Molecular weight: 69371.31 Da Isoelectric Point: 8.0636
>WP_000053816.1 MULTISPECIES: type IV secretory system conjugative DNA transfer family protein [Gammaproteobacteria]
MSLKLPDKGQWAFIGLVMCLVTYYTGSVAVYFLNGKTPLYIWKNFDSMLLWRIITESNIRTDIRLTAIPS
LLSGMVSSLIVPVFIIWQLNKTAVALYGDAKFASDNDLRKSKLLKWEKENDTDILVGAYKGKYLWYTAPD
FVSLGAGTRAGKGAAIGIPNLLVRKHSLIALDPKQELWKITSKVREILLGNKVYLLDPFNSKTHQFNPLF
YIDLKAESGAKDLLKLIEILFPSYGMTGAEAHFNNLAGQYWTGLAKLLHFFINYEPSWLNEFGLKPVFSI
GSVVDLYSNIDRELILSKREELEGTNGLDENALYHLRDALTKIREYHETEDEQRSSIDGSFRKKMSLFYL
PTVRKCTDGNDFDLRQLRREDITVYVGVNAEDISLAYDFLNLFFNFVVEVTLRENPDFDPTLKHDCLMFL
DEFPSIGYMPIIKKGSGYIAGFKLKLLTIYQNISQLNEIYGIEGAKTLMSAHPCRIIYAVSEEDDAAKIS
EKLGYITTTSKSTSKNRGRSTSQGESESEARRALVLPQELGTLDFKEEFIILKGENPVKAEKALYYLDPY
FMDRLMKVSPKLASLTMKLNKTKKIFGVKGLKYPSKEKMLSVGELESEVLL
MSLKLPDKGQWAFIGLVMCLVTYYTGSVAVYFLNGKTPLYIWKNFDSMLLWRIITESNIRTDIRLTAIPS
LLSGMVSSLIVPVFIIWQLNKTAVALYGDAKFASDNDLRKSKLLKWEKENDTDILVGAYKGKYLWYTAPD
FVSLGAGTRAGKGAAIGIPNLLVRKHSLIALDPKQELWKITSKVREILLGNKVYLLDPFNSKTHQFNPLF
YIDLKAESGAKDLLKLIEILFPSYGMTGAEAHFNNLAGQYWTGLAKLLHFFINYEPSWLNEFGLKPVFSI
GSVVDLYSNIDRELILSKREELEGTNGLDENALYHLRDALTKIREYHETEDEQRSSIDGSFRKKMSLFYL
PTVRKCTDGNDFDLRQLRREDITVYVGVNAEDISLAYDFLNLFFNFVVEVTLRENPDFDPTLKHDCLMFL
DEFPSIGYMPIIKKGSGYIAGFKLKLLTIYQNISQLNEIYGIEGAKTLMSAHPCRIIYAVSEEDDAAKIS
EKLGYITTTSKSTSKNRGRSTSQGESESEARRALVLPQELGTLDFKEEFIILKGENPVKAEKALYYLDPY
FMDRLMKVSPKLASLTMKLNKTKKIFGVKGLKYPSKEKMLSVGELESEVLL
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 20792..30744
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| APS45_RS23285 (APS45_24100) | 15802..16008 | - | 207 | WP_000850859 | hemolysin expression modulator Hha | - |
| APS45_RS23290 (APS45_24105) | 16005..18158 | - | 2154 | WP_001235737 | type IA DNA topoisomerase | - |
| APS45_RS23295 (APS45_24110) | 18245..18547 | - | 303 | WP_000820909 | TrbM/KikA/MpfK family conjugal transfer protein | - |
| APS45_RS23300 (APS45_24115) | 18544..18957 | - | 414 | WP_000722610 | cag pathogenicity island Cag12 family protein | - |
| APS45_RS23305 (APS45_24120) | 18954..20789 | - | 1836 | WP_000053816 | type IV secretory system conjugative DNA transfer family protein | - |
| APS45_RS23310 (APS45_24125) | 20792..21823 | - | 1032 | WP_001058474 | P-type DNA transfer ATPase VirB11 | virB11 |
| APS45_RS23315 (APS45_24130) | 21825..23030 | - | 1206 | WP_000139138 | VirB10/TraB/TrbI family type IV secretion system protein | virB10 |
| APS45_RS23320 (APS45_24135) | 23027..23956 | - | 930 | WP_000783379 | TrbG/VirB9 family P-type conjugative transfer protein | virB9 |
| APS45_RS23325 (APS45_24140) | 23961..24674 | - | 714 | WP_000394613 | type IV secretion system protein | virB8 |
| APS45_RS23330 (APS45_24145) | 24919..25980 | - | 1062 | WP_000796671 | type IV secretion system protein | virB6 |
| APS45_RS23335 (APS45_24150) | 25992..26276 | - | 285 | WP_000748128 | EexN family lipoprotein | - |
| APS45_RS23340 (APS45_24155) | 26291..27040 | - | 750 | WP_000744206 | type IV secretion system protein | - |
| APS45_RS23345 (APS45_24160) | 27051..29804 | - | 2754 | WP_001532172 | VirB3 family type IV secretion system protein | virb4 |
| APS45_RS23350 (APS45_24165) | 29823..30119 | - | 297 | WP_000916182 | TrbC/VirB2 family protein | virB2 |
| APS45_RS23355 (APS45_24170) | 30097..30744 | - | 648 | WP_000953530 | lytic transglycosylase domain-containing protein | virB1 |
| APS45_RS23360 (APS45_24175) | 30777..30989 | - | 213 | WP_000125172 | hypothetical protein | - |
| APS45_RS25765 | 30919..31437 | - | 519 | WP_001446885 | transcription termination/antitermination NusG family protein | - |
| APS45_RS23365 (APS45_24180) | 31790..32956 | - | 1167 | WP_000539532 | MobP1 family relaxase | - |
| APS45_RS23370 (APS45_24185) | 32959..33504 | - | 546 | WP_000757693 | DNA distortion polypeptide 1 | - |
| APS45_RS25770 | 33830..34102 | - | 273 | WP_000160399 | hypothetical protein | - |
| APS45_RS27000 | 34115..34264 | - | 150 | WP_000003880 | hypothetical protein | - |
| APS45_RS25775 | 34334..34513 | - | 180 | WP_000439078 | hypothetical protein | - |
| APS45_RS23380 (APS45_24195) | 34556..34885 | - | 330 | WP_000866646 | hypothetical protein | - |
| APS45_RS23385 (APS45_24200) | 34978..35193 | - | 216 | WP_001180116 | hypothetical protein | - |
| APS45_RS23390 (APS45_24205) | 35183..35428 | - | 246 | WP_000356547 | hypothetical protein | - |
Host bacterium
| ID | 11992 | GenBank | NZ_CP012926 |
| Plasmid name | p12-4374_37 | Incompatibility group | IncX1 |
| Plasmid size | 37697 bp | Coordinate of oriT [Strand] | 33284..33890 [+] |
| Host baterium | Salmonella enterica subsp. enterica serovar Heidelberg strain 12-4374 |
Cargo genes
| Drug resistance gene | - |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |