Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 120434 |
| Name | oriT_pUL-CPE-07  |
| Organism | Citrobacter youngae strain UL-CPE-01 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_CP132286 (43672..43771 [-], 100 nt) |
| oriT length | 100 nt |
| IRs (inverted repeats) | 34..41, 44..51 (AGTGCGAT..ATCGCACT) 20..25, 39..44 (TAAATC..GATTTA) |
| Location of nic site | 62..63 |
| Conserved sequence flanking the nic site |
GGTGTATAGC |
| Note | Predicted by oriTfinder 2.0 |
oriT sequence
Download Length: 100 nt
>oriT_pUL-CPE-07
TATTGAATGTTTTATTCTTTAAATCAGTTAGTTAGTGCGATTTATCGCACTGCGTTAGGTGTATAGCAGGTTAAGGGCTAAAAAATAATCAGTTTGGTAG
TATTGAATGTTTTATTCTTTAAATCAGTTAGTTAGTGCGATTTATCGCACTGCGTTAGGTGTATAGCAGGTTAAGGGCTAAAAAATAATCAGTTTGGTAG
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 12869 | GenBank | WP_020323154 |
| Name | mobF_GXN37_RS29900_pUL-CPE-07 |
UniProt ID | A0A0R8CGS3 |
| Length | 1072 a.a. | PDB ID | |
| Note | Predicted by oriTfinder 2.0 | ||
Relaxase protein sequence
Download Length: 1072 a.a. Molecular weight: 118689.40 Da Isoelectric Point: 6.4933
>WP_020323154.1 MULTISPECIES: MobF family relaxase [Enterobacterales]
MLDITTITRIDIASVVGYYADAKDDYYSKDSSFTAWHGQGAEALGLSGEVSSQRFKELLVGEIDPFTQMK
RSSGDATKERLGYDLTFSAPKGVSMQALIHGDKAIIAAHEKAVAAAVQEAEKLAQARTTHAGKTITQNTG
NLVVASFRHETSRALDPELHTHAFVMNMTQRGDGQWRALKNDELMRAKMHLGDVYKQELALELTKAGYEL
RYNNKNNTFDMAHFTDEQIRGFSRRSAQIEEGLAAMGLTRETADAQTKSRVSMATRDKKTDDYSREDIHK
EWVNRANELGIDFNDLSWAGKGKDGPQTSMNTVPNFTSPEVKADRAIQFALKSLSERDASFDQSRLLAVA
NKKAIGQASKQDIEAAYYRAVAKGAIIEGEARYTTTTDQRSKDAPPLPAMTKAEWQAQLTDKKGMNNGQA
KALVAEGIKSGRLKKTSHRVTTVEGIRVEKAVLNIEARGRGKVIAALTSEQVTAQLVGKTLKAEQQKSVV
DICTTTDRFVAAHGFAGTGKSYMTMSAKAVLESQGFHVTALAPYGTQKKSLEDEGMPARTVAAFVKAKDK
KIDEKSVVFIDEAGVIPARQMKVLMETIEKAGARAVFLGDTSQTKAVEAGKPFEQLISAGMQTSYMKDIQ
RQKNDVLLEAVKLAAEGHISGSLARLSNISAEKDQDKRLEAVANRWLSFSPEQREGTLIISGTNESRVIL
NSQIREALQLQGKGVEVNFLERVDSTQAERRDSKYYQVGQIIIPEKDYKNGLQRGESYRVLDTGPGNLLT
VAGSDGQKISFSPRTHKNLSVYTSVAAELAVGDKVMVTRNDKTLDVANGDRFTVTGATEKGTFTLTNAKG
REIELDQKQAAYLSYAYATTVHKAQGLTCDRVLFNIDTRSLTTSKDVFYVGISRARHEVEIFTDDKGRLL
SSASRNSPKTTASEIDRFLGMEERYKDVNRSYGHDDGQQAKSYGHEAGQQTGEKENTMKNATEAAHDGPD
TSGTENTSQDLRQREQEEVNAAIRYEQRQEATPEMEANPYHDYERYADEGPDYGDMQDYSTYEEYERARD
VELPQHEHENHQHDYDKEGYGL
MLDITTITRIDIASVVGYYADAKDDYYSKDSSFTAWHGQGAEALGLSGEVSSQRFKELLVGEIDPFTQMK
RSSGDATKERLGYDLTFSAPKGVSMQALIHGDKAIIAAHEKAVAAAVQEAEKLAQARTTHAGKTITQNTG
NLVVASFRHETSRALDPELHTHAFVMNMTQRGDGQWRALKNDELMRAKMHLGDVYKQELALELTKAGYEL
RYNNKNNTFDMAHFTDEQIRGFSRRSAQIEEGLAAMGLTRETADAQTKSRVSMATRDKKTDDYSREDIHK
EWVNRANELGIDFNDLSWAGKGKDGPQTSMNTVPNFTSPEVKADRAIQFALKSLSERDASFDQSRLLAVA
NKKAIGQASKQDIEAAYYRAVAKGAIIEGEARYTTTTDQRSKDAPPLPAMTKAEWQAQLTDKKGMNNGQA
KALVAEGIKSGRLKKTSHRVTTVEGIRVEKAVLNIEARGRGKVIAALTSEQVTAQLVGKTLKAEQQKSVV
DICTTTDRFVAAHGFAGTGKSYMTMSAKAVLESQGFHVTALAPYGTQKKSLEDEGMPARTVAAFVKAKDK
KIDEKSVVFIDEAGVIPARQMKVLMETIEKAGARAVFLGDTSQTKAVEAGKPFEQLISAGMQTSYMKDIQ
RQKNDVLLEAVKLAAEGHISGSLARLSNISAEKDQDKRLEAVANRWLSFSPEQREGTLIISGTNESRVIL
NSQIREALQLQGKGVEVNFLERVDSTQAERRDSKYYQVGQIIIPEKDYKNGLQRGESYRVLDTGPGNLLT
VAGSDGQKISFSPRTHKNLSVYTSVAAELAVGDKVMVTRNDKTLDVANGDRFTVTGATEKGTFTLTNAKG
REIELDQKQAAYLSYAYATTVHKAQGLTCDRVLFNIDTRSLTTSKDVFYVGISRARHEVEIFTDDKGRLL
SSASRNSPKTTASEIDRFLGMEERYKDVNRSYGHDDGQQAKSYGHEAGQQTGEKENTMKNATEAAHDGPD
TSGTENTSQDLRQREQEEVNAAIRYEQRQEATPEMEANPYHDYERYADEGPDYGDMQDYSTYEEYERARD
VELPQHEHENHQHDYDKEGYGL
Protein domains
Predicted by InterproScan.
Protein structure
| Source | ID | Structure |
|---|---|---|
| AlphaFold DB | A0A0R8CGS3 |
T4CP
| ID | 15118 | GenBank | WP_020323171 |
| Name | t4cp2_GXN37_RS29895_pUL-CPE-07 |
UniProt ID | _ |
| Length | 510 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 510 a.a. Molecular weight: 58208.12 Da Isoelectric Point: 9.7037
>WP_020323171.1 MULTISPECIES: type IV secretion system DNA-binding domain-containing protein [Enterobacterales]
MTEQERGLIFLCSLLGPIPFVWFITAKFVYGINSETAHYLVPYLLKNTFNLWPLWVSIIAGSVIGLCGFI
GFIIYDKGRVYKGPRFKRVLRGTKLVRASSLAEKTKERGHKQLTVAGVPVPTEYETLHFSIGGATGTGKS
TIIKEAIYSSLKRGRDKRVILDPNGEYVETFYRENDIILNPYDKRSPGWSMFNEIRDEFDYDLYAVSIIQ
ESKERSAEEWYRYGRLLYREVSKKLLTHKRNPSMEEVLYWCNVAEYDKVKDFVKGTPAESLFIKGAERAT
GSARFVLGDKLASHLKMPEGNFSLRDWLEDDKPGTLFITWQEQMKKSLNPLISCWLDIMFSSLLGMGKRD
QRTLFFIDELESLEYLPNLQDLLTKGRKSGASVWAGYQTFSQLVERYGINIAETLLGSMRSGIVMGSSRL
GKATLEHMSRALGEIEGEIERRQGSLLQSGPNNRPRIETRTVRAVTPTEISELRNLTGYIYFPGDLPVGK
FKTKHVQYTRKNPVPGIIMR
MTEQERGLIFLCSLLGPIPFVWFITAKFVYGINSETAHYLVPYLLKNTFNLWPLWVSIIAGSVIGLCGFI
GFIIYDKGRVYKGPRFKRVLRGTKLVRASSLAEKTKERGHKQLTVAGVPVPTEYETLHFSIGGATGTGKS
TIIKEAIYSSLKRGRDKRVILDPNGEYVETFYRENDIILNPYDKRSPGWSMFNEIRDEFDYDLYAVSIIQ
ESKERSAEEWYRYGRLLYREVSKKLLTHKRNPSMEEVLYWCNVAEYDKVKDFVKGTPAESLFIKGAERAT
GSARFVLGDKLASHLKMPEGNFSLRDWLEDDKPGTLFITWQEQMKKSLNPLISCWLDIMFSSLLGMGKRD
QRTLFFIDELESLEYLPNLQDLLTKGRKSGASVWAGYQTFSQLVERYGINIAETLLGSMRSGIVMGSSRL
GKATLEHMSRALGEIEGEIERRQGSLLQSGPNNRPRIETRTVRAVTPTEISELRNLTGYIYFPGDLPVGK
FKTKHVQYTRKNPVPGIIMR
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 44342..61838
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| GXN37_RS29855 | 40129..40806 | + | 678 | WP_020323167 | DUF5417 domain-containing protein | - |
| GXN37_RS29860 | 40988..41194 | + | 207 | WP_020323152 | DUF905 family protein | - |
| GXN37_RS29865 | 41268..41450 | + | 183 | WP_000170167 | hypothetical protein | - |
| GXN37_RS29870 | 41509..41859 | - | 351 | WP_223226687 | hypothetical protein | - |
| GXN37_RS29875 | 41923..42291 | - | 369 | WP_032416596 | plasmid stabilization protein StbC | - |
| GXN37_RS29880 | 42294..43010 | - | 717 | WP_020323147 | StbB family protein | - |
| GXN37_RS29885 | 43019..43450 | - | 432 | WP_020323173 | plasmid stabilization protein StbA | - |
| GXN37_RS29890 | 43917..44342 | + | 426 | WP_223831802 | traK protein | - |
| GXN37_RS29895 | 44342..45874 | + | 1533 | WP_020323171 | type IV secretion system DNA-binding domain-containing protein | virb4 |
| GXN37_RS29900 | 45879..49097 | + | 3219 | WP_020323154 | MobF family relaxase | - |
| GXN37_RS29905 | 49094..49759 | + | 666 | WP_020323157 | DUF6710 family protein | - |
| GXN37_RS29910 | 49752..50114 | + | 363 | WP_020323170 | hypothetical protein | - |
| GXN37_RS29915 | 50730..51041 | - | 312 | WP_032416518 | hypothetical protein | - |
| GXN37_RS29920 | 51038..51505 | - | 468 | WP_046092601 | phospholipase D family protein | - |
| GXN37_RS29925 | 51562..52563 | - | 1002 | WP_020323165 | ATPase, T2SS/T4P/T4SS family | virB11 |
| GXN37_RS29930 | 52614..53747 | - | 1134 | WP_020323153 | type IV secretion system protein VirB10 | virB10 |
| GXN37_RS29935 | 53747..54634 | - | 888 | WP_020323166 | TrbG/VirB9 family P-type conjugative transfer protein | virB9 |
| GXN37_RS29940 | 54645..55340 | - | 696 | WP_001208352 | type IV secretion system protein | virB8 |
| GXN37_RS29945 | 55559..56596 | - | 1038 | WP_020323169 | type IV secretion system protein | virB6 |
| GXN37_RS29950 | 56613..56855 | - | 243 | WP_000858958 | EexN family lipoprotein | - |
| GXN37_RS29955 | 56865..57566 | - | 702 | WP_020323143 | type IV secretion system protein | virB5 |
| GXN37_RS29960 | 57582..60155 | - | 2574 | WP_020323176 | VirB4 family type IV secretion/conjugal transfer ATPase | virb4 |
| GXN37_RS29965 | 60156..60473 | - | 318 | WP_000462629 | type IV secretion system protein VirB3 | virB3 |
| GXN37_RS29970 | 60513..60809 | - | 297 | WP_015060075 | TrbC/VirB2 family protein | virB2 |
| GXN37_RS29975 | 61056..61838 | - | 783 | WP_032416587 | lytic transglycosylase domain-containing protein | virB1 |
| GXN37_RS29980 | 61938..62255 | + | 318 | WP_032449361 | H-NS histone family protein | - |
| GXN37_RS29985 | 62259..62609 | + | 351 | WP_032416642 | hypothetical protein | - |
| GXN37_RS29990 | 62948..63256 | + | 309 | WP_032416643 | hypothetical protein | - |
| GXN37_RS29995 | 63541..63726 | + | 186 | WP_006118530 | ribbon-helix-helix domain-containing protein | - |
| GXN37_RS30000 | 63723..64331 | - | 609 | WP_032449362 | recombinase family protein | - |
| GXN37_RS30005 | 64497..64829 | - | 333 | WP_020323168 | hypothetical protein | - |
Host bacterium
| ID | 20863 | GenBank | NZ_CP132286 |
| Plasmid name | pUL-CPE-07 | Incompatibility group | IncN3 |
| Plasmid size | 64968 bp | Coordinate of oriT [Strand] | 43672..43771 [-] |
| Host baterium | Citrobacter youngae strain UL-CPE-01 |
Cargo genes
| Drug resistance gene | blaKPC-2 |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |