Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 120496 |
| Name | oriT_pRHBSTW-00302_5  |
| Organism | Citrobacter freundii strain RHBSTW-00302 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_CP056639 (41165..41759 [+], 595 nt) |
| oriT length | 595 nt |
| IRs (inverted repeats) | 569..574, 579..584 (ATGCCC..GGGCAT) 497..503, 508..514 (CCTCCCG..CGGGAGG) 433..438, 442..447 (GTTCGC..GCGAAC) 75..80, 86..91 (TGCTTT..AAAGCA) 69..74, 82..87 (TTACTT..AAGTAA) |
| Location of nic site | 294..295 |
| Conserved sequence flanking the nic site |
TCCTGCATCG |
| Note | Predicted by oriTfinder 2.0 |
oriT sequence
Download Length: 595 nt
>oriT_pRHBSTW-00302_5
TGTTAAATACATTGTAGTTTTGATAAAATCATTAGTATCTGGCATAAAGTTATCATTATCATCTTCTGTTACTTTGCTTTTAAGTAAAGCACTGGCAAGCAATTTCATGCCTTTAGCAACAGTTAAACCAGGCTCATCTGGATAAATAACCTTCAGACATTCAAGTAGATTATCATGCTGTTTTTCTTCTAGTCTGAAATTAATTTGCTTCATAAATCCTCCAACAAGAACCGACTGTAGGTCACCGGGCAAACGAGTAAAATGCTAGCATTTTGCGGCGTTTGCCCTATCCTGCATCGCTTTGATCTAGCACTAGTCTTGAATTGTGCTTCAGCGTCGAGGAAAAAGCAAAACTGAAGGGCTGTCATGGCTGAAGGTTTCGCTTGTCTACGACCGGAAACATCTCAATGGCTGTGAGCTATGTGGGATAAGGTTCGCTACGCGAACGGTCTGGCAGGGGGCGCAAGCGCTGTCTTGCAGAGTATATAAAAAAGCACCTCCCGCAAACGGGAGGGCTTCGGCGATTCATGACGTGTGAAACTATTCAGGGTCTGGTGTGTCGCCTACCATGCCCTGACGGGCATCACACAACCAG
TGTTAAATACATTGTAGTTTTGATAAAATCATTAGTATCTGGCATAAAGTTATCATTATCATCTTCTGTTACTTTGCTTTTAAGTAAAGCACTGGCAAGCAATTTCATGCCTTTAGCAACAGTTAAACCAGGCTCATCTGGATAAATAACCTTCAGACATTCAAGTAGATTATCATGCTGTTTTTCTTCTAGTCTGAAATTAATTTGCTTCATAAATCCTCCAACAAGAACCGACTGTAGGTCACCGGGCAAACGAGTAAAATGCTAGCATTTTGCGGCGTTTGCCCTATCCTGCATCGCTTTGATCTAGCACTAGTCTTGAATTGTGCTTCAGCGTCGAGGAAAAAGCAAAACTGAAGGGCTGTCATGGCTGAAGGTTTCGCTTGTCTACGACCGGAAACATCTCAATGGCTGTGAGCTATGTGGGATAAGGTTCGCTACGCGAACGGTCTGGCAGGGGGCGCAAGCGCTGTCTTGCAGAGTATATAAAAAAGCACCTCCCGCAAACGGGAGGGCTTCGGCGATTCATGACGTGTGAAACTATTCAGGGTCTGGTGTGTCGCCTACCATGCCCTGACGGGCATCACACAACCAG
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 12906 | GenBank | WP_044864205 |
| Name | mobP1_HV147_RS27715_pRHBSTW-00302_5 |
UniProt ID | A0A221ZPJ2 |
| Length | 386 a.a. | PDB ID | |
| Note | Predicted by oriTfinder 2.0 | ||
Relaxase protein sequence
Download Length: 386 a.a. Molecular weight: 44352.85 Da Isoelectric Point: 10.6126
>WP_044864205.1 MULTISPECIES: MobP1 family relaxase [Enterobacterales]
MGVSVDKEYRVKRKSSEAGRKSAFAHKVKNGGKNYQRNVQERINRKGASKEVVVKISGGAITRQGIRNSI
DYMSRESELPVMSESGQVWKGDEIQEAKEHMVDRANDPQNVMNDKGKENKKVTQNIVFSPPVSAKVKPED
LLESVRKTMHKKYPNHRFVLGYHNDKKDHPHVHVVFRIRDEDGKRTDIRKKDLREIRTGFCEELKLKGYD
VKATHRQQQGLNQSIRDAHSTAPKRQKGVYEVVDVGYDHYQHDKTKPKQHFLKLKTLNKGVEKTYWGADF
GDLTSRENVKKGDLVKLKKLGQKEVKIPALDKHGVQHGWKTVHRNEWKLDNLGVKGIDRTPSSSKELVLN
SAAMLQKQQLQMKQFIQIKQAMLQNEQKMKIGIKLG
MGVSVDKEYRVKRKSSEAGRKSAFAHKVKNGGKNYQRNVQERINRKGASKEVVVKISGGAITRQGIRNSI
DYMSRESELPVMSESGQVWKGDEIQEAKEHMVDRANDPQNVMNDKGKENKKVTQNIVFSPPVSAKVKPED
LLESVRKTMHKKYPNHRFVLGYHNDKKDHPHVHVVFRIRDEDGKRTDIRKKDLREIRTGFCEELKLKGYD
VKATHRQQQGLNQSIRDAHSTAPKRQKGVYEVVDVGYDHYQHDKTKPKQHFLKLKTLNKGVEKTYWGADF
GDLTSRENVKKGDLVKLKKLGQKEVKIPALDKHGVQHGWKTVHRNEWKLDNLGVKGIDRTPSSSKELVLN
SAAMLQKQQLQMKQFIQIKQAMLQNEQKMKIGIKLG
Protein domains
Predicted by InterproScan.
Protein structure
| Source | ID | Structure |
|---|---|---|
| AlphaFold DB | A0A221ZPJ2 |
T4CP
| ID | 15157 | GenBank | WP_044715174 |
| Name | t4cp2_HV147_RS27655_pRHBSTW-00302_5 |
UniProt ID | _ |
| Length | 611 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 611 a.a. Molecular weight: 69245.98 Da Isoelectric Point: 7.1493
>WP_044715174.1 MULTISPECIES: type IV secretory system conjugative DNA transfer family protein [Enterobacterales]
MSLKLPDKGQWLFIGFVMCLFTYYAGSVAVYFFNGKTPLFIWKNFDSMLLWRLMTESNIRSDIRITAMPA
LLSGLAASVIVPVFIIWQLNKKDFSLYGDAKFASDDDLKKSKLLKWEKENDDDILVGAYKGKYLWYTAPD
FVSLGAGTRAGKGAAIGIPNLLVRKHSLIALDPKQELWKITSKVREVILQNKVFLLDPFNSKTHKFNPLF
YIDLKAESGAKDLLKLIEILFPSYGMTGAEAHFNNLAGQYWTGLAKLLHFFINYAPDWLNEFNLKPIFSI
GSVVDLYSNIDRENVLANREDFEGIAGLDETALFHLRDALTKIREYHETEDEQRSSIDGSFRKKMSLFYL
PTVRKCTDGNDFDLRQLRREDISIYVGVNAEDMSLAYDFLNLFFNFVVEVTLRENPDFDPTLKHDCLMFL
DEFPSIGYMPIIKKGSGYIAGFKLKLLTIYQNISQLNEIYGIEGAKTLMSAHPCRIIYAVSEEDDAKKIS
EKLGYTTAKSTGSSKTSGRSTSKSNSESDAQRALVLPQELGTLEFSEEFIILKGENPVKAKKALYYLDSY
FMDRLMLVSPKLAALTSSLNKTKNIFGVKGLKYPSKEKMLSVGELESEVLL
MSLKLPDKGQWLFIGFVMCLFTYYAGSVAVYFFNGKTPLFIWKNFDSMLLWRLMTESNIRSDIRITAMPA
LLSGLAASVIVPVFIIWQLNKKDFSLYGDAKFASDDDLKKSKLLKWEKENDDDILVGAYKGKYLWYTAPD
FVSLGAGTRAGKGAAIGIPNLLVRKHSLIALDPKQELWKITSKVREVILQNKVFLLDPFNSKTHKFNPLF
YIDLKAESGAKDLLKLIEILFPSYGMTGAEAHFNNLAGQYWTGLAKLLHFFINYAPDWLNEFNLKPIFSI
GSVVDLYSNIDRENVLANREDFEGIAGLDETALFHLRDALTKIREYHETEDEQRSSIDGSFRKKMSLFYL
PTVRKCTDGNDFDLRQLRREDISIYVGVNAEDMSLAYDFLNLFFNFVVEVTLRENPDFDPTLKHDCLMFL
DEFPSIGYMPIIKKGSGYIAGFKLKLLTIYQNISQLNEIYGIEGAKTLMSAHPCRIIYAVSEEDDAKKIS
EKLGYTTAKSTGSSKTSGRSTSKSNSESDAQRALVLPQELGTLEFSEEFIILKGENPVKAKKALYYLDSY
FMDRLMLVSPKLAALTSSLNKTKNIFGVKGLKYPSKEKMLSVGELESEVLL
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 28640..38595
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| HV147_RS27625 (HV147_27625) | 24199..24972 | - | 774 | WP_044715185 | hypothetical protein | - |
| HV147_RS27630 (HV147_27630) | 24987..25457 | - | 471 | WP_044715183 | thermonuclease family protein | - |
| HV147_RS27635 (HV147_27635) | 25454..25774 | - | 321 | WP_044715215 | hypothetical protein | - |
| HV147_RS27640 (HV147_27640) | 25795..25998 | - | 204 | WP_044715181 | hypothetical protein | - |
| HV147_RS28180 | 26067..26405 | - | 339 | WP_225622178 | hypothetical protein | - |
| HV147_RS27650 (HV147_27650) | 26410..26805 | - | 396 | WP_044715177 | cag pathogenicity island Cag12 family protein | - |
| HV147_RS27655 (HV147_27655) | 26802..28637 | - | 1836 | WP_044715174 | type IV secretory system conjugative DNA transfer family protein | - |
| HV147_RS27660 (HV147_27660) | 28640..29671 | - | 1032 | WP_044715211 | P-type DNA transfer ATPase VirB11 | virB11 |
| HV147_RS27665 (HV147_27665) | 29695..30906 | - | 1212 | WP_044715172 | VirB10/TraB/TrbI family type IV secretion system protein | virB10 |
| HV147_RS27670 (HV147_27670) | 30903..31832 | - | 930 | WP_044715170 | TrbG/VirB9 family P-type conjugative transfer protein | virB9 |
| HV147_RS27675 (HV147_27675) | 31837..32565 | - | 729 | WP_044715168 | virB8 family protein | virB8 |
| HV147_RS27680 (HV147_27680) | 32805..33860 | - | 1056 | WP_044715165 | type IV secretion system protein | virB6 |
| HV147_RS27685 (HV147_27685) | 33872..34129 | - | 258 | WP_044715163 | EexN family lipoprotein | - |
| HV147_RS27690 (HV147_27690) | 34139..34885 | - | 747 | WP_044715162 | type IV secretion system protein | - |
| HV147_RS27695 (HV147_27695) | 34896..37655 | - | 2760 | WP_044715159 | VirB3 family type IV secretion system protein | virb4 |
| HV147_RS27700 (HV147_27700) | 37677..37967 | - | 291 | WP_044715156 | TrbC/VirB2 family protein | virB2 |
| HV147_RS27705 (HV147_27705) | 37951..38595 | - | 645 | WP_044715155 | lytic transglycosylase domain-containing protein | virB1 |
| HV147_RS27710 (HV147_27710) | 38819..39310 | - | 492 | WP_044715152 | transcription termination/antitermination NusG family protein | - |
| HV147_RS27715 (HV147_27715) | 39666..40826 | - | 1161 | WP_044864205 | MobP1 family relaxase | - |
| HV147_RS27720 (HV147_27720) | 40829..41377 | - | 549 | WP_044715148 | DNA distortion polypeptide 1 | - |
| HV147_RS27725 (HV147_27725) | 41705..41962 | - | 258 | WP_044715147 | hypothetical protein | - |
| HV147_RS27730 (HV147_27730) | 41978..42127 | - | 150 | WP_162852120 | hypothetical protein | - |
| HV147_RS27735 (HV147_27735) | 42205..42546 | - | 342 | WP_059347451 | hypothetical protein | - |
| HV147_RS27740 (HV147_27740) | 42643..42882 | - | 240 | WP_044715143 | hypothetical protein | - |
| HV147_RS27745 (HV147_27745) | 42875..43141 | - | 267 | WP_044715141 | hypothetical protein | - |
Host bacterium
| ID | 20925 | GenBank | NZ_CP056639 |
| Plasmid name | pRHBSTW-00302_5 | Incompatibility group | IncX5 |
| Plasmid size | 44331 bp | Coordinate of oriT [Strand] | 41165..41759 [+] |
| Host baterium | Citrobacter freundii strain RHBSTW-00302 |
Cargo genes
| Drug resistance gene | - |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |