Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 116792 |
| Name | oriT_pLHC5-1-tetX-240k  |
| Organism | Citrobacter werkmanii strain LHC5-1 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_CP084295 (33450..33734 [+], 285 nt) |
| oriT length | 285 nt |
| IRs (inverted repeats) | 184..189, 191..196 (AAAAGT..ACTTTT) |
| Location of nic site | 109..110 |
| Conserved sequence flanking the nic site |
TTTGGTTAAA |
| Note | Predicted by oriTfinder 2.0 |
oriT sequence
Download Length: 285 nt
>oriT_pLHC5-1-tetX-240k
GGTTATTGCTACTTAATGCCGATAACGACTCAGGCTTTGAGGTTTTTTTATACGGTTCACATTTCGTTAGCAAGGTCAGGGTTTTTTGATAAAATTCTGGTTAGTTTGGTTAAAAAGTGTTACAAGTAAGGGTAATGGCTGAAAGGTTAGTTTTAAGGTTCAAAGCGGCAGTATTAAAATTCCAAAAGTTACTTTTCATCCTTCAGAATCCAGACCTTAATTTCATGTAGAAGATTCGTACAATTGTATTGGCGCAAGGACAATCCGCACATGTCAGAATCAGAT
GGTTATTGCTACTTAATGCCGATAACGACTCAGGCTTTGAGGTTTTTTTATACGGTTCACATTTCGTTAGCAAGGTCAGGGTTTTTTGATAAAATTCTGGTTAGTTTGGTTAAAAAGTGTTACAAGTAAGGGTAATGGCTGAAAGGTTAGTTTTAAGGTTCAAAGCGGCAGTATTAAAATTCCAAAAGTTACTTTTCATCCTTCAGAATCCAGACCTTAATTTCATGTAGAAGATTCGTACAATTGTATTGGCGCAAGGACAATCCGCACATGTCAGAATCAGAT
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 10713 | GenBank | WP_039026431 |
| Name | mobH_LD024_RS24140_pLHC5-1-tetX-240k |
UniProt ID | A0A8E6NZY6 |
| Length | 1011 a.a. | PDB ID | |
| Note | Predicted by oriTfinder 2.0 | ||
Relaxase protein sequence
Download Length: 1011 a.a. Molecular weight: 112997.99 Da Isoelectric Point: 4.5108
>WP_039026431.1 MULTISPECIES: MobH family relaxase [Enterobacterales]
MNFRALFLSMQRVFGIFSRRENDVSELMMKDAANFSPFAQIIGEQKYTVPDHPNPEVLKFIEYPTRPAGI
QTFNEQSILSLYRDKLHSISMMLAISDGDIREDAYTFTNLVLKPLIEYIRWIHLLPASENHHHNGIGGLL
SHSLEVAMISLKNANHSELRPIGYQDEEVVRRKVYLYAAFICGLVHDAGKVYDLDIVSLNLSETLTWAPS
SQSLLDWARENNVVEYEIHWRKRIHNQHNIWSSVFLERILDPVCMSFLDRVKKERVYAKMVTALNVYNDG
NDFLSKCVRTSDYYSTGTDLNVLRDPIMGLRSNDAAARAIGTIKHNFTSININNYKTKPMHIIIVNGEVY
LNENAFLDFVLSDFAAHKFNFPQGDAGKTVLVESLVLRGYVEPYDDERVVHYFIPGTYSENEIASIFRNG
IGKLEFYNLLKLRWIGLIFDSYKIPDSVPGLFSVNANKDFIYIDEQKTVTEYRRPVPGRESVTRVTDTVN
DAIENTPQYGLQLVNGPDADSNNIISSENTESITDSLEESGADISNEIFETQVVTAIDTAETVNADEPEQ
VEEHDDRSQIHLVEQLHEMLLSAPLPHHAVINIDSVPYLDLDAAIALIPGIDEAAFCNGPFFQLTYRDGS
LDGMWIVRDVNNLRLIQLGDNCAGMQVSTSEPRNTSSLKSLFDTSMYQPLDIPEAPSVNEAASPPQTPLE
LPQPRLNAPVAEEASSVAEQTNAHSEPDSVIATEYEQYGHLLEETLDSDGEAYSDLIASDSTEAEYSATD
PQSSDFAQLPRETALSVAPGDLDYSEGAIKPPAPDATGKETILTSPEPAEDVRETVAAVEKASHLSPALA
RLFAVSTHAEKKHEKTQEPSPVKEVKNPTSSTTVKAPISIEPPGAEEKEAVEEFTLLNDGEVTELEYVEI
ATMLHQILTKLSGSFKRKRKNRFMVLTQNTFYLTQSCIEKYGTQLNAPELFNQLPQYQVTSGAVVNTKCI
AFNIPTLVAASDRAKVDIELIINKLKEVGNL
MNFRALFLSMQRVFGIFSRRENDVSELMMKDAANFSPFAQIIGEQKYTVPDHPNPEVLKFIEYPTRPAGI
QTFNEQSILSLYRDKLHSISMMLAISDGDIREDAYTFTNLVLKPLIEYIRWIHLLPASENHHHNGIGGLL
SHSLEVAMISLKNANHSELRPIGYQDEEVVRRKVYLYAAFICGLVHDAGKVYDLDIVSLNLSETLTWAPS
SQSLLDWARENNVVEYEIHWRKRIHNQHNIWSSVFLERILDPVCMSFLDRVKKERVYAKMVTALNVYNDG
NDFLSKCVRTSDYYSTGTDLNVLRDPIMGLRSNDAAARAIGTIKHNFTSININNYKTKPMHIIIVNGEVY
LNENAFLDFVLSDFAAHKFNFPQGDAGKTVLVESLVLRGYVEPYDDERVVHYFIPGTYSENEIASIFRNG
IGKLEFYNLLKLRWIGLIFDSYKIPDSVPGLFSVNANKDFIYIDEQKTVTEYRRPVPGRESVTRVTDTVN
DAIENTPQYGLQLVNGPDADSNNIISSENTESITDSLEESGADISNEIFETQVVTAIDTAETVNADEPEQ
VEEHDDRSQIHLVEQLHEMLLSAPLPHHAVINIDSVPYLDLDAAIALIPGIDEAAFCNGPFFQLTYRDGS
LDGMWIVRDVNNLRLIQLGDNCAGMQVSTSEPRNTSSLKSLFDTSMYQPLDIPEAPSVNEAASPPQTPLE
LPQPRLNAPVAEEASSVAEQTNAHSEPDSVIATEYEQYGHLLEETLDSDGEAYSDLIASDSTEAEYSATD
PQSSDFAQLPRETALSVAPGDLDYSEGAIKPPAPDATGKETILTSPEPAEDVRETVAAVEKASHLSPALA
RLFAVSTHAEKKHEKTQEPSPVKEVKNPTSSTTVKAPISIEPPGAEEKEAVEEFTLLNDGEVTELEYVEI
ATMLHQILTKLSGSFKRKRKNRFMVLTQNTFYLTQSCIEKYGTQLNAPELFNQLPQYQVTSGAVVNTKCI
AFNIPTLVAASDRAKVDIELIINKLKEVGNL
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4CP
| ID | 12511 | GenBank | WP_000167418 |
| Name | traD_LD024_RS24135_pLHC5-1-tetX-240k |
UniProt ID | _ |
| Length | 694 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 694 a.a. Molecular weight: 77969.74 Da Isoelectric Point: 8.7275
>WP_000167418.1 MULTISPECIES: conjugative transfer system coupling protein TraD [Enterobacterales]
MTKSKRTNLHAQENFYRPILEYRSASVLLICAVIMLVMGFRSDGVNIAPIILYTAVFLLLVCLYRCKTAH
PYLMAHWRVFQRQIMFISLKSLRTINKSNFFSNERKYRQLVQEYKKNNRPVPDRKTYFCNGFEWGPEHAD
RAYQIANLSSDKREIALPFVLSPIARHFETMARSMGGNNAIFAVDRRAPIFVTEDNWFGHTLITGNVGTG
KTVLQRLLSISMLHLGHVIVVIDPKNDAEWRQSLMDEASELGLPFYKFHPAQPSSSVCIDVCNAYTNVSD
LTSRLLSLVSVPGEVNPFVQYAEALVSTVITGLSYTDKKPSIYLIHKNMKSHMSVVNLTIKVMECCFARH
YGPDVWMEKVKYASNDTLQVRFKRLTEWFNAHFLNYEGAEPIEWIDTVGRLVDYSMSDPEHMSKMTAGIM
PLFSRLTEQPLNELLSPSPNTLTSREIVTSDGMFSTGGVLYISLDGLSNPESARAISQLIMSDLTSCAGS
RYNADDGDMSSHSRISIFVDEAHSAINNSMINLLAQGRAAQIALFICTQTISDFIAAANAETANRITGLC
NNYISLRVNDTPTQTLVVENFGKSPISTNMVTYTTGSETTLPHNNFSGSISERKQTTLEESIPKELLGQV
PKFHIVARLQDGRKVVGQIPIAVSEKAMKPNTTLLEMFLKPAGKVTLRQNVGLSYLNKYLRKLH
MTKSKRTNLHAQENFYRPILEYRSASVLLICAVIMLVMGFRSDGVNIAPIILYTAVFLLLVCLYRCKTAH
PYLMAHWRVFQRQIMFISLKSLRTINKSNFFSNERKYRQLVQEYKKNNRPVPDRKTYFCNGFEWGPEHAD
RAYQIANLSSDKREIALPFVLSPIARHFETMARSMGGNNAIFAVDRRAPIFVTEDNWFGHTLITGNVGTG
KTVLQRLLSISMLHLGHVIVVIDPKNDAEWRQSLMDEASELGLPFYKFHPAQPSSSVCIDVCNAYTNVSD
LTSRLLSLVSVPGEVNPFVQYAEALVSTVITGLSYTDKKPSIYLIHKNMKSHMSVVNLTIKVMECCFARH
YGPDVWMEKVKYASNDTLQVRFKRLTEWFNAHFLNYEGAEPIEWIDTVGRLVDYSMSDPEHMSKMTAGIM
PLFSRLTEQPLNELLSPSPNTLTSREIVTSDGMFSTGGVLYISLDGLSNPESARAISQLIMSDLTSCAGS
RYNADDGDMSSHSRISIFVDEAHSAINNSMINLLAQGRAAQIALFICTQTISDFIAAANAETANRITGLC
NNYISLRVNDTPTQTLVVENFGKSPISTNMVTYTTGSETTLPHNNFSGSISERKQTTLEESIPKELLGQV
PKFHIVARLQDGRKVVGQIPIAVSEKAMKPNTTLLEMFLKPAGKVTLRQNVGLSYLNKYLRKLH
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 201346..210514
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| LD024_RS24990 (LD024_24990) | 196755..198008 | - | 1254 | WP_039026198 | ParA family protein | - |
| LD024_RS24995 (LD024_24995) | 198444..198590 | + | 147 | WP_154166350 | hypothetical protein | - |
| LD024_RS25000 (LD024_25000) | 198816..199049 | - | 234 | WP_032489575 | hypothetical protein | - |
| LD024_RS25005 (LD024_25005) | 199400..199573 | - | 174 | WP_153801876 | hypothetical protein | - |
| LD024_RS25010 (LD024_25010) | 200251..200673 | - | 423 | WP_144314410 | hypothetical protein | - |
| LD024_RS25015 (LD024_25015) | 201346..204027 | - | 2682 | WP_001255540 | IncHI-type conjugal transfer ATPase TrhC | virb4 |
| LD024_RS25020 (LD024_25020) | 204036..204986 | - | 951 | WP_001022266 | TraV family lipoprotein | traV |
| LD024_RS25025 (LD024_25025) | 204996..205748 | - | 753 | WP_010892304 | protein-disulfide isomerase HtdT | - |
| LD024_RS25030 (LD024_25030) | 205854..206366 | - | 513 | WP_000429933 | hypothetical protein | - |
| LD024_RS25035 (LD024_25035) | 206375..207733 | - | 1359 | WP_000351840 | IncHI-type conjugal transfer protein TrhB | traB |
| LD024_RS25040 (LD024_25040) | 207723..208163 | - | 441 | WP_001224094 | plasmid transfer protein HtdO | - |
| LD024_RS25045 (LD024_25045) | 208165..209397 | - | 1233 | WP_000202110 | type-F conjugative transfer system secretin TraK | traK |
| LD024_RS25050 (LD024_25050) | 209400..210185 | - | 786 | WP_000771920 | TraE/TraK family type IV conjugative transfer system protein | traE |
| LD024_RS25055 (LD024_25055) | 210197..210514 | - | 318 | WP_000203871 | type IV conjugative transfer system protein TraL | traL |
| LD024_RS25060 (LD024_25060) | 210566..210919 | - | 354 | WP_000424120 | pili assembly chaperone | - |
| LD024_RS25065 (LD024_25065) | 211482..211826 | + | 345 | WP_153253765 | hypothetical protein | - |
| LD024_RS25070 (LD024_25070) | 212273..213148 | - | 876 | WP_001282731 | RepB family plasmid replication initiator protein | - |
| LD024_RS25075 (LD024_25075) | 213683..214759 | + | 1077 | WP_001015069 | hypothetical protein | - |
| LD024_RS25080 (LD024_25080) | 214777..214977 | + | 201 | WP_000357614 | hypothetical protein | - |
Host bacterium
| ID | 17225 | GenBank | NZ_CP084295 |
| Plasmid name | pLHC5-1-tetX-240k | Incompatibility group | IncR |
| Plasmid size | 240705 bp | Coordinate of oriT [Strand] | 33450..33734 [+] |
| Host baterium | Citrobacter werkmanii strain LHC5-1 |
Cargo genes
| Drug resistance gene | ant(3'')-Ia, blaTEM-1B, qnrS1, tet(A), floR, tet(X4), lnu(G) |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |