Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 113326 |
| Name | oriT_pIncX1  |
| Organism | Salmonella enterica subsp. enterica serovar Heidelberg isolate FT3-7B |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_CP128263 (34587..35193 [+], 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_pIncX1
CTTTGTTTACCTGTTAAGTACATCGTTGTTTTGATAAAATCATTATTATCAAAAAACGTATTTATATCCTTACTGACAGCTTTACTTTTTAATAAAGCATTTGCTAAAAGTTTCATGCCTTTAGCTACTGTTAAAGCTGGTTCATCCGGATAAAGAGTTTTAAGGCAATCCAGCAAATCATCATGCTGATTTTCATCAATTCTGAATTGAACTTTTTTCATAAAATTCTCCAACAAGAACCGACTGTAGGTCACCGGGCAAATGTTGCGGAATGGCGTCAGAGACGTCATTTTGCGGCGTTTGCCCTATCCTGCATCGCAGTGAATCTGGCGCCGCTCATAAATTGTGCTTGAGCATCAACAAAAATGCAAAAAGGCTGATGTTGTCATGGCTGAACATACGTACGTCTGCGACCGGAAACCCGATCAATGCGGTAAGGACAGTGCCGTCAGGTTCGCTCCGCGAACGGTCTGGCAGGAAGCGCAAGCGCAGTCCCGCGCAATATATCAGAAAGCACCTCCCGAAATACGGGAGGGCTTCGGCTATTCAGCTAAGGTTGCTCTGTTCAGGTTGCTGAGTGTAGCCTTCCATGCCCTGACGGGCATCA
CTTTGTTTACCTGTTAAGTACATCGTTGTTTTGATAAAATCATTATTATCAAAAAACGTATTTATATCCTTACTGACAGCTTTACTTTTTAATAAAGCATTTGCTAAAAGTTTCATGCCTTTAGCTACTGTTAAAGCTGGTTCATCCGGATAAAGAGTTTTAAGGCAATCCAGCAAATCATCATGCTGATTTTCATCAATTCTGAATTGAACTTTTTTCATAAAATTCTCCAACAAGAACCGACTGTAGGTCACCGGGCAAATGTTGCGGAATGGCGTCAGAGACGTCATTTTGCGGCGTTTGCCCTATCCTGCATCGCAGTGAATCTGGCGCCGCTCATAAATTGTGCTTGAGCATCAACAAAAATGCAAAAAGGCTGATGTTGTCATGGCTGAACATACGTACGTCTGCGACCGGAAACCCGATCAATGCGGTAAGGACAGTGCCGTCAGGTTCGCTCCGCGAACGGTCTGGCAGGAAGCGCAAGCGCAGTCCCGCGCAATATATCAGAAAGCACCTCCCGAAATACGGGAGGGCTTCGGCTATTCAGCTAAGGTTGCTCTGTTCAGGTTGCTGAGTGTAGCCTTCCATGCCCTGACGGGCATCA
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 8547 | GenBank | WP_000539532 |
| Name | mobP1_QR684_RS23815_pIncX1 |
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 | 9861 | GenBank | WP_000053816 |
| Name | t4cp2_QR684_RS23745_pIncX1 |
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: 22095..32047
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| QR684_RS23725 (QR684_23725) | 17105..17311 | - | 207 | WP_000850859 | hemolysin expression modulator Hha | - |
| QR684_RS23730 (QR684_23730) | 17308..19461 | - | 2154 | WP_001235737 | type IA DNA topoisomerase | - |
| QR684_RS23735 (QR684_23735) | 19548..19850 | - | 303 | WP_000820909 | TrbM/KikA/MpfK family conjugal transfer protein | - |
| QR684_RS23740 (QR684_23740) | 19847..20260 | - | 414 | WP_000722610 | cag pathogenicity island Cag12 family protein | - |
| QR684_RS23745 (QR684_23745) | 20257..22092 | - | 1836 | WP_000053816 | type IV secretory system conjugative DNA transfer family protein | - |
| QR684_RS23750 (QR684_23750) | 22095..23126 | - | 1032 | WP_001058474 | P-type DNA transfer ATPase VirB11 | virB11 |
| QR684_RS23755 (QR684_23755) | 23128..24333 | - | 1206 | WP_000139138 | VirB10/TraB/TrbI family type IV secretion system protein | virB10 |
| QR684_RS23760 (QR684_23760) | 24330..25259 | - | 930 | WP_000783379 | TrbG/VirB9 family P-type conjugative transfer protein | virB9 |
| QR684_RS23765 (QR684_23765) | 25264..25977 | - | 714 | WP_000394613 | type IV secretion system protein | virB8 |
| QR684_RS23775 (QR684_23775) | 26222..27283 | - | 1062 | WP_000796671 | type IV secretion system protein | virB6 |
| QR684_RS23780 (QR684_23780) | 27295..27579 | - | 285 | WP_000748128 | EexN family lipoprotein | - |
| QR684_RS23785 (QR684_23785) | 27594..28343 | - | 750 | WP_000744206 | type IV secretion system protein | - |
| QR684_RS23790 (QR684_23790) | 28354..31107 | - | 2754 | WP_001532172 | VirB3 family type IV secretion system protein | virb4 |
| QR684_RS23795 (QR684_23795) | 31126..31422 | - | 297 | WP_000916182 | TrbC/VirB2 family protein | virB2 |
| QR684_RS23800 (QR684_23800) | 31400..32047 | - | 648 | WP_000953530 | lytic transglycosylase domain-containing protein | virB1 |
| QR684_RS23805 (QR684_23805) | 32080..32292 | - | 213 | WP_000125172 | hypothetical protein | - |
| QR684_RS23810 (QR684_23810) | 32222..32740 | - | 519 | WP_001446885 | transcription termination/antitermination NusG family protein | - |
| QR684_RS23815 (QR684_23815) | 33093..34259 | - | 1167 | WP_000539532 | MobP1 family relaxase | - |
| QR684_RS23820 (QR684_23820) | 34262..34807 | - | 546 | WP_000757693 | DNA distortion polypeptide 1 | - |
| QR684_RS23825 (QR684_23825) | 35133..35405 | - | 273 | WP_000160399 | hypothetical protein | - |
| QR684_RS23830 (QR684_23830) | 35418..35615 | - | 198 | WP_001675595 | hypothetical protein | - |
| QR684_RS23835 (QR684_23835) | 35637..35816 | - | 180 | WP_000439078 | hypothetical protein | - |
| QR684_RS23840 (QR684_23840) | 35859..36188 | - | 330 | WP_000866646 | hypothetical protein | - |
| QR684_RS23845 (QR684_23845) | 36281..36496 | - | 216 | WP_001180116 | hypothetical protein | - |
| QR684_RS23850 (QR684_23850) | 36486..36731 | - | 246 | WP_000356547 | hypothetical protein | - |
Host bacterium
| ID | 13761 | GenBank | NZ_CP128263 |
| Plasmid name | pIncX1 | Incompatibility group | IncX1 |
| Plasmid size | 37697 bp | Coordinate of oriT [Strand] | 34587..35193 [+] |
| Host baterium | Salmonella enterica subsp. enterica serovar Heidelberg isolate FT3-7B |
Cargo genes
| Drug resistance gene | - |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |