Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 105987 |
| Name | oriT_pRHB32-C09_3  |
| Organism | Escherichia fergusonii strain RHB32-C09 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_CP057240 (28123..28729 [+], 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_pRHB32-C09_3
CTTTGTTTACCTGTTAAGTACATCGTTGTTTTGATAAAATCATTATTATCAAAAAACGTATTTATATCCTTACTGACAGCTTTACTTTTTAATAAAGCATTTGCTAAAAGTTTCATGCCTTTAGCTACTGTTAAAGCTGGTTCATCCGGATAAAGAGTTTTAAGGCAATCCAGCAAATCATCATGCTGATTTTCATCAATTCTGAATTGAACTTTTTTCATAAAATTCTCCAACAAGAACCGACTGTAGGTCACCGGGCAAATGTTGCGGAATGGCGTCAGAGACGTCATTTTGCGGCGTTTGCCCTATCCTGCATCGCAGTGAATCTGGCGCCGCTCATAAATTGTGCTTGAGCATCAACAAAAATGCAAAAAGGCTGATGTTGTCATGGCTGAACATACGTACGTCTGCGACCGGAAACCCGATCAATGCGGTAAGGACAGTGCCGTCAGGTTCGCTCCGCGAACGGTCTGGCAGGAAGCGCAAGCGCAGCCCCGCGCAATATATCAGAAAGCACCTCCCGAAATACGGGAGGGCTTCGGCTATTCAGCTAAGGTTGCTCTGTTCAGGTTGCTGAGTGTAGCCTTCCATGCCCTGACGGGCATCA
CTTTGTTTACCTGTTAAGTACATCGTTGTTTTGATAAAATCATTATTATCAAAAAACGTATTTATATCCTTACTGACAGCTTTACTTTTTAATAAAGCATTTGCTAAAAGTTTCATGCCTTTAGCTACTGTTAAAGCTGGTTCATCCGGATAAAGAGTTTTAAGGCAATCCAGCAAATCATCATGCTGATTTTCATCAATTCTGAATTGAACTTTTTTCATAAAATTCTCCAACAAGAACCGACTGTAGGTCACCGGGCAAATGTTGCGGAATGGCGTCAGAGACGTCATTTTGCGGCGTTTGCCCTATCCTGCATCGCAGTGAATCTGGCGCCGCTCATAAATTGTGCTTGAGCATCAACAAAAATGCAAAAAGGCTGATGTTGTCATGGCTGAACATACGTACGTCTGCGACCGGAAACCCGATCAATGCGGTAAGGACAGTGCCGTCAGGTTCGCTCCGCGAACGGTCTGGCAGGAAGCGCAAGCGCAGCCCCGCGCAATATATCAGAAAGCACCTCCCGAAATACGGGAGGGCTTCGGCTATTCAGCTAAGGTTGCTCTGTTCAGGTTGCTGAGTGTAGCCTTCCATGCCCTGACGGGCATCA
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 4027 | GenBank | WP_016247741 |
| Name | mobP1_HVZ00_RS23150_pRHB32-C09_3 |
UniProt ID | _ |
| Length | 388 a.a. | PDB ID | |
| Note | Predicted by oriTfinder 2.0 | ||
Relaxase protein sequence
Download Length: 388 a.a. Molecular weight: 44519.89 Da Isoelectric Point: 10.5067
>WP_016247741.1 MULTISPECIES: MobP1 family relaxase [Enterobacteriaceae]
MGVYVDKEYRVKRKSSENGRKSAFAHKVKNGGKNYSRNVQERINRKGASKEVVVKISGGAITRQGIRNSI
DYMSRESELPVMSESGRVWTGDEILEAKEHMIDRANDPQHVMNDKGKENKKITQNIVFSPPVSAKVKPED
LLESVRKTMQKKYPNHRFVLGYHCDKKEHPHVHVVFRIRDNDGKRADIRKKDLREIRTGFCEELKLKGYD
VKATHKQQHGLNQSVKDAHNTAPKRQKGVYEVVDIGYDHYQNDKTKSKQHFIKLKTLNKGVEKTYWGADF
GDLCSRESVKAGDLVRLKKLGQKEVKIPALDKNGVQHGWKTVHRNEWQLENLGVKGVDRTPSASKELVLN
SPDMLLKQQQRMAQFTQQKASTLQSEQKLKTGIKFWGL
MGVYVDKEYRVKRKSSENGRKSAFAHKVKNGGKNYSRNVQERINRKGASKEVVVKISGGAITRQGIRNSI
DYMSRESELPVMSESGRVWTGDEILEAKEHMIDRANDPQHVMNDKGKENKKITQNIVFSPPVSAKVKPED
LLESVRKTMQKKYPNHRFVLGYHCDKKEHPHVHVVFRIRDNDGKRADIRKKDLREIRTGFCEELKLKGYD
VKATHKQQHGLNQSVKDAHNTAPKRQKGVYEVVDIGYDHYQNDKTKSKQHFIKLKTLNKGVEKTYWGADF
GDLCSRESVKAGDLVRLKKLGQKEVKIPALDKNGVQHGWKTVHRNEWQLENLGVKGVDRTPSASKELVLN
SPDMLLKQQQRMAQFTQQKASTLQSEQKLKTGIKFWGL
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4CP
| ID | 4039 | GenBank | WP_024159713 |
| Name | t4cp2_HVZ00_RS23090_pRHB32-C09_3 |
UniProt ID | _ |
| Length | 611 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 611 a.a. Molecular weight: 69399.36 Da Isoelectric Point: 8.0636
>WP_024159713.1 MULTISPECIES: type IV secretory system conjugative DNA transfer family protein [Enterobacteriaceae]
MSLKLPDKGQWVFIGLVMCLVTYYTGSVAVYFLNGKTPLYIWKNFDSMLLWRIITESNIRTDIRLTAIPS
LLSGMVSSLIVPVFIIWQLNKTAVALYGDAKFASDNDLRKSKLLKWEKENDTDILVGAYKGKYLWYTAPD
FVSLGAGTRAGKGAAIGIPNLLVRKHSLIALDPKQELWKITSKVREILLGNKVYLLDPFNSKTHQFNPLF
YIDLKAESGAKDLLKLIEILFPSYGMTGAEAHFNNLAGQYWTGLAKLLHFFINYEPSWLNEFGLKPVFSI
GSVVDLYSNIDRELILSKREELEGTNGLDENALYHLRDALTKIREYHETEDEQRSSIDGSFRKKMSLFYL
PTVRKCTDGNDFDLRQLRREDITVYVGVNAEDISLAYDFLNLFFNFVVEVTLRENPDFDPTLKHDCLMFL
DEFPSIGYMPIIKKGSGYIAGFKLKLLTIYQNISQLNEIYGIEGAKTLMSAHPCRIIYAVSEEDDAAKIS
EKLGYITTTSKSTSKNRGRSTSQGESESEARRALVLPQELGTLDFKEEFIILKGENPVKAEKALYYLDPY
FMDRLMKVSPKLASLTMKLNKTKKIFGVKGLKYPSKEKMLSVGELESEVLL
MSLKLPDKGQWVFIGLVMCLVTYYTGSVAVYFLNGKTPLYIWKNFDSMLLWRIITESNIRTDIRLTAIPS
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: 15630..25583
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| HVZ00_RS23075 (HVZ00_23070) | 12209..12784 | - | 576 | WP_058805675 | hypothetical protein | - |
| HVZ00_RS23570 | 12788..12970 | - | 183 | Protein_17 | ATP-binding protein | - |
| HVZ00_RS23080 (HVZ00_23075) | 13083..13385 | - | 303 | WP_000820907 | TrbM/KikA/MpfK family conjugal transfer protein | - |
| HVZ00_RS23085 (HVZ00_23080) | 13382..13795 | - | 414 | WP_012477153 | cag pathogenicity island Cag12 family protein | - |
| HVZ00_RS23090 (HVZ00_23085) | 13792..15627 | - | 1836 | WP_024159713 | type IV secretory system conjugative DNA transfer family protein | - |
| HVZ00_RS23095 (HVZ00_23090) | 15630..16661 | - | 1032 | WP_001058474 | P-type DNA transfer ATPase VirB11 | virB11 |
| HVZ00_RS23100 (HVZ00_23095) | 16663..17868 | - | 1206 | WP_058805665 | VirB10/TraB/TrbI family type IV secretion system protein | virB10 |
| HVZ00_RS23105 (HVZ00_23100) | 17865..18794 | - | 930 | WP_001722388 | TrbG/VirB9 family P-type conjugative transfer protein | virB9 |
| HVZ00_RS23110 (HVZ00_23105) | 18799..19512 | - | 714 | WP_052909228 | type IV secretion system protein | virB8 |
| HVZ00_RS23115 (HVZ00_23110) | 19758..20819 | - | 1062 | WP_000796673 | type IV secretion system protein | virB6 |
| HVZ00_RS23120 (HVZ00_23115) | 20831..21115 | - | 285 | WP_001722385 | EexN family lipoprotein | - |
| HVZ00_RS23125 (HVZ00_23120) | 21130..21879 | - | 750 | WP_001722384 | type IV secretion system protein | - |
| HVZ00_RS23130 (HVZ00_23125) | 21890..24643 | - | 2754 | WP_065314228 | VirB3 family type IV secretion system protein | virb4 |
| HVZ00_RS23135 (HVZ00_23130) | 24662..24958 | - | 297 | WP_000916182 | TrbC/VirB2 family protein | virB2 |
| HVZ00_RS23140 (HVZ00_23135) | 24936..25583 | - | 648 | WP_049074298 | lytic transglycosylase domain-containing protein | virB1 |
| HVZ00_RS23145 (HVZ00_23140) | 25758..26276 | - | 519 | WP_001446885 | transcription termination/antitermination NusG family protein | - |
| HVZ00_RS23150 (HVZ00_23145) | 26629..27795 | - | 1167 | WP_016247741 | MobP1 family relaxase | - |
| HVZ00_RS23155 (HVZ00_23150) | 27798..28343 | - | 546 | WP_000757693 | DNA distortion polypeptide 1 | - |
| HVZ00_RS23165 (HVZ00_23160) | 28669..28941 | - | 273 | WP_000160399 | hypothetical protein | - |
| HVZ00_RS23170 (HVZ00_23165) | 28954..29103 | - | 150 | WP_000003880 | hypothetical protein | - |
| HVZ00_RS23175 (HVZ00_23170) | 29173..29352 | - | 180 | WP_000439078 | hypothetical protein | - |
| HVZ00_RS23180 (HVZ00_23175) | 29395..29724 | - | 330 | WP_046623240 | hypothetical protein | - |
| HVZ00_RS23185 (HVZ00_23180) | 29817..30032 | - | 216 | WP_001180116 | hypothetical protein | - |
| HVZ00_RS23190 (HVZ00_23185) | 30022..30267 | - | 246 | WP_000356546 | hypothetical protein | - |
Host bacterium
| ID | 6424 | GenBank | NZ_CP057240 |
| Plasmid name | pRHB32-C09_3 | Incompatibility group | IncX1 |
| Plasmid size | 32364 bp | Coordinate of oriT [Strand] | 28123..28729 [+] |
| Host baterium | Escherichia fergusonii strain RHB32-C09 |
Cargo genes
| Drug resistance gene | - |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |