Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 105209 |
| Name | oriT_pRHBSTW-00269_3  |
| Organism | Citrobacter freundii strain RHBSTW-00269 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_CP055545 (14890..15504 [-], 615 nt) |
| oriT length | 615 nt |
| IRs (inverted repeats) | 589..594, 599..604 (ATGCCC..GGGCAT) 517..524, 528..535 (CCTCCCGT..ACGGGAGG) 32..37, 46..51 (TGATAA..TTATCA) |
| Location of nic site | 314..315 |
| Conserved sequence flanking the nic site |
TCCTGCATCG |
| Note | Predicted by oriTfinder 2.0 |
oriT sequence
Download Length: 615 nt
>oriT_pRHBSTW-00269_3
CTTTGCTTAGCTGTTAAATATAGCGTTGTTTTGATAAAATCATCATTATCATCATTTATGTTTTCTTCTATTTCTTTACTCTTACTTTTTAATAAAGCACTTGCTAATAACTTCATACCTTTTGCAACTGTCAAATTTGGTTCATCAGGGTAAATGCTTTTAAGACATACTAACAAATAATCATGGTCTTCATCTTCAACTCTAAACTGAACTTTTTTCATAATAACTCCCAACAAGAACCGACTGTAGGTCACCGGGCAAACGCTGAAAAATAACGTCGAATGACGTCATTTTGCGGCGTTTGCCCTATCCTGCATCGCAGTTAACCATGCCACAACCGAAATTGTGCTTCAGGTTGAACTGAAATGCAAAATCGTAAGGGCTTTGCTGCTGAAAGATTGATAGTATTCGACCGTTAACAAATGAATTGCTATAAGCTCTGTGCGGGGCTGTTCGCTTCGCGAATGGGTCTAGCAGGGGGCGCAAGCGCTGTCCTGCGCTATATGCAAGTAAGCGCCTCCCGTAAAACGGGAGGGCTTCGGCGAATCAACTACAATGATCTATTTTCCCGGCTGATTGTCGCCTTCCATGCCCTCGCGGGCATCATGCAACCAG
CTTTGCTTAGCTGTTAAATATAGCGTTGTTTTGATAAAATCATCATTATCATCATTTATGTTTTCTTCTATTTCTTTACTCTTACTTTTTAATAAAGCACTTGCTAATAACTTCATACCTTTTGCAACTGTCAAATTTGGTTCATCAGGGTAAATGCTTTTAAGACATACTAACAAATAATCATGGTCTTCATCTTCAACTCTAAACTGAACTTTTTTCATAATAACTCCCAACAAGAACCGACTGTAGGTCACCGGGCAAACGCTGAAAAATAACGTCGAATGACGTCATTTTGCGGCGTTTGCCCTATCCTGCATCGCAGTTAACCATGCCACAACCGAAATTGTGCTTCAGGTTGAACTGAAATGCAAAATCGTAAGGGCTTTGCTGCTGAAAGATTGATAGTATTCGACCGTTAACAAATGAATTGCTATAAGCTCTGTGCGGGGCTGTTCGCTTCGCGAATGGGTCTAGCAGGGGGCGCAAGCGCTGTCCTGCGCTATATGCAAGTAAGCGCCTCCCGTAAAACGGGAGGGCTTCGGCGAATCAACTACAATGATCTATTTTCCCGGCTGATTGTCGCCTTCCATGCCCTCGCGGGCATCATGCAACCAG
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
T4CP
| ID | 3548 | GenBank | WP_181499705 |
| Name | t4cp2_HV141_RS26255_pRHBSTW-00269_3 |
UniProt ID | _ |
| Length | 919 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 919 a.a. Molecular weight: 104579.59 Da Isoelectric Point: 6.0514
>WP_181499705.1 VirB3 family type IV secretion system protein [Citrobacter freundii]
MSTVFKGLTRPALIRGLGVPLYPFLAMCVLVVLLGVWIDDLMYFLILPGWFAIKRVTKIEERFFDLLYLR
AVVKGHPLANKRFSAVHYAGSQYDEVDISNVDNFMKLKDQASIEALIPYSSHITDDLIVTKNRDLLATWQ
VDGAYFECVDDEDLTLLTDQLNTLIRSFEGRAVTFYTHRVRVRKGVKVDFNSKIPFVNRVMNDYYSSLSQ
PEYFENKLYLTICYKPFNIEDKVSQFISKNKKDKNIFDEPINDMNEICGRLDTYLSRFHAHRLGLVEDNG
RVFSDQLSLFQYLLSGKWQKVRVTNSPFYTYLGGKDLFFGNDAGQITASQNARYFRSIEIKDYFQETDAG
IFDALMYLPVEYVFTSSFTSMDKQAAVKALDDQIDKLEMTDDAAKSLLADLCVGVDMVSSGYNSFGKCHQ
TLIVFADTPERLVKDTNIVTTTLEDLGLVVTYSTLSLGAAFFSQLPGNYNLRPRLSMLSSLNFAEMESFH
NFFHGKATGNTWGNSLMALRGSGNDVYHLNYHMTTENINFFGKNPTLGHCEILGTSNVGKTVLMMTMSYA
AQQFGTPESFPANRKVRKLTTVFFDKDRAGEVGIRAMGGAYFRVKGGEPTGWNPAALPPTKRNIAFLKDI
IRLICKLNGNTVDDYQNSLISSAVERLMEREDRSYPISKLIPLIMEPDDVETKRHGIKARLRAWKQGGEY
GWLLDNASDSFDVAHLDVFGIDGTEFLDDKVVAPVASFYLIYRVTMLADGRRLLIYMDEFWQWINNDAFK
DFVYNKLKTGRKLDMVLVPATQSPDELIKSPIAAAVREQCATHIYLANPKAKRNEYVDELQVRDLYFDKI
KAIDPLSRQFLVVKNPQRQGERDDFAAFAKLDLGKAAYYLPILSASAEQLELFDEIWSEGMAPEEWIDTY
LERANRGVK
MSTVFKGLTRPALIRGLGVPLYPFLAMCVLVVLLGVWIDDLMYFLILPGWFAIKRVTKIEERFFDLLYLR
AVVKGHPLANKRFSAVHYAGSQYDEVDISNVDNFMKLKDQASIEALIPYSSHITDDLIVTKNRDLLATWQ
VDGAYFECVDDEDLTLLTDQLNTLIRSFEGRAVTFYTHRVRVRKGVKVDFNSKIPFVNRVMNDYYSSLSQ
PEYFENKLYLTICYKPFNIEDKVSQFISKNKKDKNIFDEPINDMNEICGRLDTYLSRFHAHRLGLVEDNG
RVFSDQLSLFQYLLSGKWQKVRVTNSPFYTYLGGKDLFFGNDAGQITASQNARYFRSIEIKDYFQETDAG
IFDALMYLPVEYVFTSSFTSMDKQAAVKALDDQIDKLEMTDDAAKSLLADLCVGVDMVSSGYNSFGKCHQ
TLIVFADTPERLVKDTNIVTTTLEDLGLVVTYSTLSLGAAFFSQLPGNYNLRPRLSMLSSLNFAEMESFH
NFFHGKATGNTWGNSLMALRGSGNDVYHLNYHMTTENINFFGKNPTLGHCEILGTSNVGKTVLMMTMSYA
AQQFGTPESFPANRKVRKLTTVFFDKDRAGEVGIRAMGGAYFRVKGGEPTGWNPAALPPTKRNIAFLKDI
IRLICKLNGNTVDDYQNSLISSAVERLMEREDRSYPISKLIPLIMEPDDVETKRHGIKARLRAWKQGGEY
GWLLDNASDSFDVAHLDVFGIDGTEFLDDKVVAPVASFYLIYRVTMLADGRRLLIYMDEFWQWINNDAFK
DFVYNKLKTGRKLDMVLVPATQSPDELIKSPIAAAVREQCATHIYLANPKAKRNEYVDELQVRDLYFDKI
KAIDPLSRQFLVVKNPQRQGERDDFAAFAKLDLGKAAYYLPILSASAEQLELFDEIWSEGMAPEEWIDTY
LERANRGVK
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
| ID | 3549 | GenBank | WP_181499696 |
| Name | t4cp2_HV141_RS26295_pRHBSTW-00269_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: 69234.08 Da Isoelectric Point: 7.5163
>WP_181499696.1 type IV secretory system conjugative DNA transfer family protein [Citrobacter freundii]
MSLKLPDKGQWVFIILVMCLLTYYIGSVAIYFFNHKTPIYIWKHYDSFLLWQVIIDSSIKTEIRLTAIPS
LLSGVLSSLAAPAFIIWKLNQNDAPLFGDAKFASDSDLKKSKLLKRERENDTDILVGRYKGKYLWYTAPD
FVSLGAGTRAGKGAAIGIPNMLVKKHSIIALDPKQELWKITSKVREVILGNKVYLLDPFNAKTHQCNPLF
YVDLKSESGAKDLLKLVEILFPSFGLTGAEAHFNNLAGQYWTGLAKLLHFFINFAPEWIDEFRVKPVFSI
GTVVDLYSIIDREQVLSNRETFEELAQGNETALFNLKDALTKIREYHETEDEQRSSVDGSFRKKMSLFYL
PTVRKCTDGNHFDLRQMRREDITVYVGVNAEDMILAYDFLNLFFNLVVEVTLRENPDFDPTLKHDCLLFL
DEFPSIGYMPIIKKGSGYIAGYKLKLLTIYQNISQLNEIYGTEGAKTLMSAHPCRVIYAVSEEDDAKKIS
EKLGYITTKSKGSSKTSGKATSRSNSESEAQRALVLPQELGTLDFSEEMIILKGEHPVKAEKALYYLDHY
FMDRLMLVSPKLTALTASINKSNNIFGVKGIKYPSKEKMLSVGELESEVLL
MSLKLPDKGQWVFIILVMCLLTYYIGSVAIYFFNHKTPIYIWKHYDSFLLWQVIIDSSIKTEIRLTAIPS
LLSGVLSSLAAPAFIIWKLNQNDAPLFGDAKFASDSDLKKSKLLKRERENDTDILVGRYKGKYLWYTAPD
FVSLGAGTRAGKGAAIGIPNMLVKKHSIIALDPKQELWKITSKVREVILGNKVYLLDPFNAKTHQCNPLF
YVDLKSESGAKDLLKLVEILFPSFGLTGAEAHFNNLAGQYWTGLAKLLHFFINFAPEWIDEFRVKPVFSI
GTVVDLYSIIDREQVLSNRETFEELAQGNETALFNLKDALTKIREYHETEDEQRSSVDGSFRKKMSLFYL
PTVRKCTDGNHFDLRQMRREDITVYVGVNAEDMILAYDFLNLFFNLVVEVTLRENPDFDPTLKHDCLLFL
DEFPSIGYMPIIKKGSGYIAGYKLKLLTIYQNISQLNEIYGTEGAKTLMSAHPCRVIYAVSEEDDAKKIS
EKLGYITTKSKGSSKTSGKATSRSNSESEAQRALVLPQELGTLDFSEEMIILKGEHPVKAEKALYYLDHY
FMDRLMLVSPKLTALTASINKSNNIFGVKGIKYPSKEKMLSVGELESEVLL
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 18065..27942
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| HV141_RS26205 (HV141_26210) | 13530..13796 | + | 267 | WP_069730080 | hypothetical protein | - |
| HV141_RS26210 (HV141_26215) | 13786..14004 | + | 219 | WP_097472872 | hypothetical protein | - |
| HV141_RS26215 (HV141_26220) | 14102..14446 | + | 345 | WP_181499702 | hypothetical protein | - |
| HV141_RS26220 (HV141_26225) | 14523..14672 | + | 150 | WP_170936284 | hypothetical protein | - |
| HV141_RS26225 (HV141_26230) | 14687..14944 | + | 258 | WP_094169121 | hypothetical protein | - |
| HV141_RS26230 (HV141_26235) | 15284..15829 | + | 546 | WP_181499703 | DNA distortion polypeptide 1 | - |
| HV141_RS26235 (HV141_26240) | 15832..16989 | + | 1158 | WP_181499704 | MobP1 family relaxase | - |
| HV141_RS26240 (HV141_26245) | 17350..17841 | + | 492 | WP_094169118 | transcription termination/antitermination NusG family protein | - |
| HV141_RS26245 (HV141_26250) | 18065..18709 | + | 645 | WP_094169116 | lytic transglycosylase domain-containing protein | virB1 |
| HV141_RS26250 (HV141_26255) | 18693..18983 | + | 291 | WP_094169115 | TrbC/VirB2 family protein | virB2 |
| HV141_RS26255 (HV141_26260) | 19008..21767 | + | 2760 | WP_181499705 | VirB3 family type IV secretion system protein | virb4 |
| HV141_RS26260 (HV141_26265) | 21769..22506 | + | 738 | WP_181499691 | type IV secretion system protein | - |
| HV141_RS26265 (HV141_26270) | 22516..22776 | + | 261 | WP_181499692 | EexN family lipoprotein | - |
| HV141_RS26270 (HV141_26275) | 22789..23844 | + | 1056 | WP_094169111 | type IV secretion system protein | virB6 |
| HV141_RS26275 (HV141_26280) | 24034..24756 | + | 723 | WP_181499693 | type IV secretion system protein | virB8 |
| HV141_RS26280 (HV141_26285) | 24762..25691 | + | 930 | WP_094169109 | TrbG/VirB9 family P-type conjugative transfer protein | virB9 |
| HV141_RS26285 (HV141_26290) | 25688..26887 | + | 1200 | WP_181499694 | VirB10/TraB/TrbI family type IV secretion system protein | virB10 |
| HV141_RS26290 (HV141_26295) | 26905..27942 | + | 1038 | WP_181499695 | P-type DNA transfer ATPase VirB11 | virB11 |
| HV141_RS26295 (HV141_26300) | 27947..29782 | + | 1836 | WP_181499696 | type IV secretory system conjugative DNA transfer family protein | - |
| HV141_RS26300 (HV141_26305) | 29779..30174 | + | 396 | WP_181499697 | cag pathogenicity island Cag12 family protein | - |
| HV141_RS26305 (HV141_26310) | 30593..31063 | + | 471 | WP_181499698 | thermonuclease family protein | - |
| HV141_RS26835 | 31076..31492 | + | 417 | WP_242462355 | hypothetical protein | - |
| HV141_RS26315 (HV141_26320) | 31593..32180 | + | 588 | WP_094169103 | DUF6012 family protein | - |
Host bacterium
| ID | 5647 | GenBank | NZ_CP055545 |
| Plasmid name | pRHBSTW-00269_3 | Incompatibility group | IncX2 |
| Plasmid size | 40393 bp | Coordinate of oriT [Strand] | 14890..15504 [-] |
| Host baterium | Citrobacter freundii strain RHBSTW-00269 |
Cargo genes
| Drug resistance gene | - |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | AcrIIA7 |