Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 107031 |
| Name | oriT_p17285-IMP  |
| Organism | Citrobacter freundii strain 17285 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_KX784503 (11350..11439 [-], 90 nt) |
| oriT length | 90 nt |
| IRs (inverted repeats) | 34..41, 44..51 (AGTGCGAT..ATCGCACT) |
| Location of nic site | 62..63 |
| Conserved sequence flanking the nic site |
GGTGTATAGC |
| Note | Predicted by oriTfinder 2.0 |
oriT sequence
Download Length: 90 nt
>oriT_p17285-IMP
TATTTCATTTTTTGTTTTTTTAATCAGTTAGTTAGTGCGATTCATCGCACTGCGTTAGGTGTATAGCAGGTTAAGGGCTAAAAAATAATC
TATTTCATTTTTTGTTTTTTTAATCAGTTAGTTAGTGCGATTCATCGCACTGCGTTAGGTGTATAGCAGGTTAAGGGCTAAAAAATAATC
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 4641 | GenBank | WP_024561907 |
| Name | mobF_HTJ76_RS00100_p17285-IMP |
UniProt ID | H1ZMV6 |
| Length | 1072 a.a. | PDB ID | |
| Note | Predicted by oriTfinder 2.0 | ||
Relaxase protein sequence
Download Length: 1072 a.a. Molecular weight: 118896.59 Da Isoelectric Point: 6.4636
>WP_024561907.1 MULTISPECIES: MobF family relaxase [Enterobacterales]
MLDITTITRIDIASVVGYYADAKDDYYSKDSSFTAWHGQGAEALGLSGEVSSQRFKELLVGEIDPFTQMK
RSSGDATKERLGYDLTFSAPKGVSMQALIHGDKAIIAAHEKAVAAAVQEAEKLAQARTTHAGKTITQNTG
NLVVASFRHETSRALDPELHTHAFVMNMTQRGDGQWRALKNDELMRAKMHLGDVYKQELALELTKAGYEL
RYNNKNNTFDMAHFTDEQIRGFSRRSAQIEEGLAAMGLTRETADAQTKSRVSMATRDKKTDDYSREDIHK
EWVNRANELGIDFNDLSWAGKGKDGPQTSMNTVPNFTSPEVKADRAIQFALKSLSERDASFDQSRLLAVA
NKKAIGQASKQDIEAAYYRAVAKGAIIEGEARYTTTTDQRSKDAPPLPAMTKAEWQAQLTDKKGMNNDQA
KALVAEGIKSGRLKKTSHRVTTVEGIRVEKAVLNIEARGRGKVIAALTSEQVTAQLVGKTLKAEQQKSVV
DICTTTDRFVAAHGFAGTGKSYMTMSAKAVLESQGFNVTALAPYGTQKKSLEDEGMPARTVAAFVKAKDK
KIDEKSVVFIDEAGVIPARQMKVLMETIEKAGARAVFLGDTSQTKAVEAGKPFEQLISAGMQTSYMKDIQ
RQKNDVLLEAVKLAAEGHISGSLARLSNISAEKDQDKRLEAVANRWLSFSPEQREGTLIISGTNESRVIL
NSQIREALQLQGKGVEVNFLERVDSTQAERRDSKYYQVGQIIIPEKDYKNGLQRGESYRVLDTGPGNLLT
VAGSDGQKISFSPRTHKNLSVYTSVAAELAVGDKVMVTRNDKTLDVANGDRFTVTGTTEKGTFTLTNAKG
REIELDQKQAAYLSYAYATTVHKAQGLTCDRVLFNIDTRSLTTSKDVFYVGISRARHEVEIFTDDKKRLL
SSASRNSPKTTASEIDRFLGMEERYKDVNRSYGHSDGQQEKSYGHDAGHQTEEKENTMKNATEAAHDGPD
TSGTENTSQDLRQREQEEVNAAIRYEQRQEATPEMEANPYHDYERYADEGPDYGDMQDYSTYEEYERARD
VELPQHEHENHQHDHDKEGYGL
MLDITTITRIDIASVVGYYADAKDDYYSKDSSFTAWHGQGAEALGLSGEVSSQRFKELLVGEIDPFTQMK
RSSGDATKERLGYDLTFSAPKGVSMQALIHGDKAIIAAHEKAVAAAVQEAEKLAQARTTHAGKTITQNTG
NLVVASFRHETSRALDPELHTHAFVMNMTQRGDGQWRALKNDELMRAKMHLGDVYKQELALELTKAGYEL
RYNNKNNTFDMAHFTDEQIRGFSRRSAQIEEGLAAMGLTRETADAQTKSRVSMATRDKKTDDYSREDIHK
EWVNRANELGIDFNDLSWAGKGKDGPQTSMNTVPNFTSPEVKADRAIQFALKSLSERDASFDQSRLLAVA
NKKAIGQASKQDIEAAYYRAVAKGAIIEGEARYTTTTDQRSKDAPPLPAMTKAEWQAQLTDKKGMNNDQA
KALVAEGIKSGRLKKTSHRVTTVEGIRVEKAVLNIEARGRGKVIAALTSEQVTAQLVGKTLKAEQQKSVV
DICTTTDRFVAAHGFAGTGKSYMTMSAKAVLESQGFNVTALAPYGTQKKSLEDEGMPARTVAAFVKAKDK
KIDEKSVVFIDEAGVIPARQMKVLMETIEKAGARAVFLGDTSQTKAVEAGKPFEQLISAGMQTSYMKDIQ
RQKNDVLLEAVKLAAEGHISGSLARLSNISAEKDQDKRLEAVANRWLSFSPEQREGTLIISGTNESRVIL
NSQIREALQLQGKGVEVNFLERVDSTQAERRDSKYYQVGQIIIPEKDYKNGLQRGESYRVLDTGPGNLLT
VAGSDGQKISFSPRTHKNLSVYTSVAAELAVGDKVMVTRNDKTLDVANGDRFTVTGTTEKGTFTLTNAKG
REIELDQKQAAYLSYAYATTVHKAQGLTCDRVLFNIDTRSLTTSKDVFYVGISRARHEVEIFTDDKKRLL
SSASRNSPKTTASEIDRFLGMEERYKDVNRSYGHSDGQQEKSYGHDAGHQTEEKENTMKNATEAAHDGPD
TSGTENTSQDLRQREQEEVNAAIRYEQRQEATPEMEANPYHDYERYADEGPDYGDMQDYSTYEEYERARD
VELPQHEHENHQHDHDKEGYGL
Protein domains
Predicted by InterproScan.
Protein structure
| Source | ID | Structure |
|---|---|---|
| AlphaFold DB | H1ZMV6 |
T4CP
| ID | 4737 | GenBank | WP_032493179 |
| Name | t4cp2_HTJ76_RS00095_p17285-IMP |
UniProt ID | _ |
| Length | 510 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 510 a.a. Molecular weight: 57912.96 Da Isoelectric Point: 9.5127
>WP_032493179.1 MULTISPECIES: type IV secretion system DNA-binding domain-containing protein [Enterobacterales]
MTEQERGLIFLCSLLGPIPFVWFITAKFVYGINSETAHYLVPYLLKNTFNLWPLWVAIIAGAVIGLCGFI
GFIIYDKGRVYKGPRFKRVLRGTKLVRASSLAEKTKERDHKQLTVAGVPVPTEYETLHFSIGGATGTGKS
TIIKEAIYSSLKRGTDKRIVLDPNGEYVETFYRPGDVILSPYDKRSPGWSMFNEIRDDFDYDLYAVSIIQ
ESKERSAEEWYRYGRLIYREVSKKLLTLKRSPTMEEVMHWCTIVENEKLKEFVKGTPAEALFIKGAERAT
GSARFVLGDKLAPHLKMPAGDFSLRDWLEDDKPGTLFITWQEQMKKSLNPLISCWLDIMFSSLLGMGKRD
QRTLFFIDELESLEYLPNLQDLLTKGRKSGASVWAGYQTYSQLIERYGINIAETLLGSMRSGIVMGSSRL
GKETLEQMSRALGEIEGEVEHKQGNPFQAGIGNRPRIETRTVRAVTPTEISELKNLTGYVYFPGDLPVGK
FKTKHVQYTRKNPVPGIIMR
MTEQERGLIFLCSLLGPIPFVWFITAKFVYGINSETAHYLVPYLLKNTFNLWPLWVAIIAGAVIGLCGFI
GFIIYDKGRVYKGPRFKRVLRGTKLVRASSLAEKTKERDHKQLTVAGVPVPTEYETLHFSIGGATGTGKS
TIIKEAIYSSLKRGTDKRIVLDPNGEYVETFYRPGDVILSPYDKRSPGWSMFNEIRDDFDYDLYAVSIIQ
ESKERSAEEWYRYGRLIYREVSKKLLTLKRSPTMEEVMHWCTIVENEKLKEFVKGTPAEALFIKGAERAT
GSARFVLGDKLAPHLKMPAGDFSLRDWLEDDKPGTLFITWQEQMKKSLNPLISCWLDIMFSSLLGMGKRD
QRTLFFIDELESLEYLPNLQDLLTKGRKSGASVWAGYQTYSQLIERYGINIAETLLGSMRSGIVMGSSRL
GKETLEQMSRALGEIEGEVEHKQGNPFQAGIGNRPRIETRTVRAVTPTEISELKNLTGYVYFPGDLPVGK
FKTKHVQYTRKNPVPGIIMR
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 12010..29510
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| HTJ76_RS00050 | 7126..7326 | + | 201 | WP_015060066 | hypothetical protein | - |
| HTJ76_RS00055 | 7381..7878 | + | 498 | WP_032493186 | MucR family transcriptional regulator | - |
| HTJ76_RS00060 | 8658..8864 | + | 207 | WP_032493183 | DUF905 family protein | - |
| HTJ76_RS00065 | 8939..9151 | + | 213 | WP_172686307 | cobalamin biosynthesis protein CbiX | - |
| HTJ76_RS00275 | 9179..9529 | - | 351 | WP_014014961 | hypothetical protein | - |
| HTJ76_RS00075 | 9591..9959 | - | 369 | WP_000360828 | plasmid stabilization protein StbC | - |
| HTJ76_RS00080 | 9962..10678 | - | 717 | WP_032493181 | StbB family protein | - |
| HTJ76_RS00085 | 10687..11118 | - | 432 | WP_029697170 | plasmid stabilization protein StbA | - |
| HTJ76_RS00280 | 11534..12010 | + | 477 | WP_001238978 | hypothetical protein | - |
| HTJ76_RS00095 | 12010..13542 | + | 1533 | WP_032493179 | type IV secretion system DNA-binding domain-containing protein | virb4 |
| HTJ76_RS00100 | 13547..16765 | + | 3219 | WP_024561907 | MobF family relaxase | - |
| HTJ76_RS00105 | 16762..17427 | + | 666 | WP_000971716 | DUF6710 family protein | - |
| HTJ76_RS00110 | 17420..17782 | + | 363 | WP_024561906 | hypothetical protein | - |
| HTJ76_RS00115 | 18710..19222 | - | 513 | WP_029697418 | phospholipase D family protein | - |
| HTJ76_RS00120 | 19234..20235 | - | 1002 | WP_001076634 | ATPase, T2SS/T4P/T4SS family | virB11 |
| HTJ76_RS00125 | 20286..21419 | - | 1134 | WP_000101920 | type IV secretion system protein VirB10 | virB10 |
| HTJ76_RS00130 | 21419..22306 | - | 888 | WP_000758230 | TrbG/VirB9 family P-type conjugative transfer protein | virB9 |
| HTJ76_RS00135 | 22317..23012 | - | 696 | WP_001208352 | type IV secretion system protein | virB8 |
| HTJ76_RS00290 | 23023..23154 | - | 132 | WP_032493177 | hypothetical protein | - |
| HTJ76_RS00140 | 23231..24268 | - | 1038 | WP_014014948 | type IV secretion system protein | virB6 |
| HTJ76_RS00145 | 24285..24527 | - | 243 | WP_000858958 | EexN family lipoprotein | - |
| HTJ76_RS00150 | 24537..25238 | - | 702 | WP_014014949 | type IV secretion system protein | virB5 |
| HTJ76_RS00155 | 25254..27827 | - | 2574 | WP_032493176 | VirB4 family type IV secretion/conjugal transfer ATPase | virb4 |
| HTJ76_RS00160 | 27828..28145 | - | 318 | WP_000462629 | VirB3 family type IV secretion system protein | virB3 |
| HTJ76_RS00165 | 28185..28526 | - | 342 | WP_001121032 | TrbC/VirB2 family protein | virB2 |
| HTJ76_RS00170 | 28728..29510 | - | 783 | WP_024562119 | lytic transglycosylase domain-containing protein | virB1 |
| HTJ76_RS00175 | 29574..29927 | + | 354 | WP_225988093 | H-NS family nucleoid-associated regulatory protein | - |
| HTJ76_RS00180 | 29931..30281 | + | 351 | WP_024562120 | hypothetical protein | - |
| HTJ76_RS00285 | 30260..30616 | + | 357 | WP_227648693 | hypothetical protein | - |
| HTJ76_RS00190 | 30620..30928 | + | 309 | WP_000733764 | hypothetical protein | - |
| HTJ76_RS00195 | 31213..31398 | + | 186 | WP_024562121 | ribbon-helix-helix domain-containing protein | - |
| HTJ76_RS00200 | 31395..32012 | - | 618 | WP_172688985 | recombinase family protein | - |
| HTJ76_RS00205 | 31989..32054 | + | 66 | Protein_41 | EAL domain-containing protein | - |
| HTJ76_RS00210 | 32129..33811 | + | 1683 | WP_172688984 | DDE-type integrase/transposase/recombinase | - |
Host bacterium
| ID | 7467 | GenBank | NZ_KX784503 |
| Plasmid name | p17285-IMP | Incompatibility group | IncN3 |
| Plasmid size | 43797 bp | Coordinate of oriT [Strand] | 11350..11439 [-] |
| Host baterium | Citrobacter freundii strain 17285 |
Cargo genes
| Drug resistance gene | blaIMP-8 |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |