Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 105394 |
| Name | oriT_p28321a-1  |
| Organism | Salmonella enterica subsp. enterica serovar Typhimurium strain CVM 28321-a |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_CP053053 (55286..55570 [-], 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_p28321a-1
GGTTATTGCTACTTAATGCCGATAACGACTCAGGCTTTGAGGTTTTTTTATACGGTTCACATTTCGTTAGCAAGGTCAGGGTTTTTTGATAAAATTCTGGTTAGTTTGGTTAAAAAGTGTTACAAGTAAGGGTAATGGCTGAAAGGTTAGTTTTAAGGTTCAAAGCGGCAGTATTAAAATTCCAAAAGTTACTTTTCATCCTTCAGAATCCAGACCTTAATTTCATGTAGAAGATTCGTACAATTGTATTGGCGCAAGGACAATCCGCACATGTCAGAATCAGAT
GGTTATTGCTACTTAATGCCGATAACGACTCAGGCTTTGAGGTTTTTTTATACGGTTCACATTTCGTTAGCAAGGTCAGGGTTTTTTGATAAAATTCTGGTTAGTTTGGTTAAAAAGTGTTACAAGTAAGGGTAATGGCTGAAAGGTTAGTTTTAAGGTTCAAAGCGGCAGTATTAAAATTCCAAAAGTTACTTTTCATCCTTCAGAATCCAGACCTTAATTTCATGTAGAAGATTCGTACAATTGTATTGGCGCAAGGACAATCCGCACATGTCAGAATCAGAT
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 3681 | GenBank | WP_001011150 |
| Name | mobH_HFS61_RS24200_p28321a-1 |
UniProt ID | A0A0G3B5W5 |
| Length | 1011 a.a. | PDB ID | |
| Note | Predicted by oriTfinder 2.0 | ||
Relaxase protein sequence
Download Length: 1011 a.a. Molecular weight: 113049.04 Da Isoelectric Point: 4.4954
>WP_001011150.1 MULTISPECIES: MobH family relaxase [Enterobacteriaceae]
MNFRALFLSMQRVFGIFSRRENDVSELMMKDAANFSPFAQIIGEQKYTVPDHPNPEVLKFIEYPTRPAGI
QTFNEQSILSLYRDKLHSISMMLAISDGDIREDAYTFTNLVLKPLIEYIRWIHLLPASENHHHNGIGGLL
SHSLEVAMISLKNANHSELRPIGYQDEEVVRRKVYLYAAFICGLVHDAGKVYDLDIVSLNLSETLTWAPS
SQSLLDWARENNVVEYEIHWRKRIHNQHNIWSSVFLERILDPVCMSFLDRVKKERVYAKMVTALNVYNDG
NDFLSKCVRTSDYYSTGTDLNVLRDPIMGLRSNDAAARAIGTIKHNFTSININNYKTKPMHIIIVNGEVY
LNENAFLDFVLSDFAAHKFNFPQGDAGKTVLVESLVQRGYVEPYDDERVVHYFIPGTYSENEIASIFRNG
IGKLEFYNLLKLRWIGLIFDSYKIPDSVPGLFSVNANKDFIYIDEQKTVTEYRRPVPGRESVTRVTDTVN
DAIENTPQYGLQLVNGPDADSNNIISSENTESITDSLEESGADISNEIFETQVVTAIDTAETVNADEPEQ
VEEHDDRSQIYLVEQLHEMLLSAPLPHHAVINIDSVPYLDLDAAIALIPGIDEAAFCNGPFFQLTYRDGS
LDGMWIVRDVNNLRLIQLGDNCAGMQVSTSEPRNTSSLKSLFDTSMYQPLDIPEAPSVNEAASPPQTPLE
LPQPRLNAPVAEEASSVAEQTNAHSEPDSVIATEYEQYGHLLEETLDSDGEAYSDLIASDSTEAEYPATD
PQSSDFAQLPRETALSVAPGDLDYSEGAIKPPAPDATGKETILTSPEPAEDVRETVAAVEKASHLSPALA
RLFAVSTHAEKKHEKTQEPSPVKEVKNPTSSTTVKAPISIEPPGAEEKEAVEEFTLLNDGEVTELEYVEI
ATMLHQILTKLSGSFKRKRKNRFMVLTQNTFYLTQSCIEKYGTQLNAPELFNQLPQYQVTSGAVVNTKCI
AFNIPTLVAASDRAKVDIELIINKLKEVGNL
MNFRALFLSMQRVFGIFSRRENDVSELMMKDAANFSPFAQIIGEQKYTVPDHPNPEVLKFIEYPTRPAGI
QTFNEQSILSLYRDKLHSISMMLAISDGDIREDAYTFTNLVLKPLIEYIRWIHLLPASENHHHNGIGGLL
SHSLEVAMISLKNANHSELRPIGYQDEEVVRRKVYLYAAFICGLVHDAGKVYDLDIVSLNLSETLTWAPS
SQSLLDWARENNVVEYEIHWRKRIHNQHNIWSSVFLERILDPVCMSFLDRVKKERVYAKMVTALNVYNDG
NDFLSKCVRTSDYYSTGTDLNVLRDPIMGLRSNDAAARAIGTIKHNFTSININNYKTKPMHIIIVNGEVY
LNENAFLDFVLSDFAAHKFNFPQGDAGKTVLVESLVQRGYVEPYDDERVVHYFIPGTYSENEIASIFRNG
IGKLEFYNLLKLRWIGLIFDSYKIPDSVPGLFSVNANKDFIYIDEQKTVTEYRRPVPGRESVTRVTDTVN
DAIENTPQYGLQLVNGPDADSNNIISSENTESITDSLEESGADISNEIFETQVVTAIDTAETVNADEPEQ
VEEHDDRSQIYLVEQLHEMLLSAPLPHHAVINIDSVPYLDLDAAIALIPGIDEAAFCNGPFFQLTYRDGS
LDGMWIVRDVNNLRLIQLGDNCAGMQVSTSEPRNTSSLKSLFDTSMYQPLDIPEAPSVNEAASPPQTPLE
LPQPRLNAPVAEEASSVAEQTNAHSEPDSVIATEYEQYGHLLEETLDSDGEAYSDLIASDSTEAEYPATD
PQSSDFAQLPRETALSVAPGDLDYSEGAIKPPAPDATGKETILTSPEPAEDVRETVAAVEKASHLSPALA
RLFAVSTHAEKKHEKTQEPSPVKEVKNPTSSTTVKAPISIEPPGAEEKEAVEEFTLLNDGEVTELEYVEI
ATMLHQILTKLSGSFKRKRKNRFMVLTQNTFYLTQSCIEKYGTQLNAPELFNQLPQYQVTSGAVVNTKCI
AFNIPTLVAASDRAKVDIELIINKLKEVGNL
Protein domains
Predicted by InterproScan.
Protein structure
| Source | ID | Structure |
|---|---|---|
| AlphaFold DB | A0A0G3B5W5 |
T4CP
| ID | 3661 | GenBank | WP_000167418 |
| Name | traD_HFS61_RS24205_p28321a-1 |
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: 115109..124277
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| HFS61_RS24510 (HFS61_24500) | 110647..110847 | - | 201 | WP_000357614 | hypothetical protein | - |
| HFS61_RS24515 (HFS61_24505) | 110865..111941 | - | 1077 | WP_001015069 | hypothetical protein | - |
| HFS61_RS24520 (HFS61_24510) | 112476..113351 | + | 876 | WP_001282731 | RepB family plasmid replication initiator protein | - |
| HFS61_RS24525 (HFS61_24515) | 113798..114142 | - | 345 | WP_153253765 | hypothetical protein | - |
| HFS61_RS24530 (HFS61_24520) | 114704..115057 | + | 354 | WP_000424120 | pili assembly chaperone | - |
| HFS61_RS24535 (HFS61_24525) | 115109..115426 | + | 318 | WP_000203871 | type IV conjugative transfer system protein TraL | traL |
| HFS61_RS24540 (HFS61_24530) | 115438..116223 | + | 786 | WP_000771920 | TraE/TraK family type IV conjugative transfer system protein | traE |
| HFS61_RS24545 (HFS61_24535) | 116226..117458 | + | 1233 | WP_000202110 | type-F conjugative transfer system secretin TraK | traK |
| HFS61_RS24550 (HFS61_24540) | 117460..117900 | + | 441 | WP_001224094 | plasmid transfer protein HtdO | - |
| HFS61_RS24555 (HFS61_24545) | 117890..119248 | + | 1359 | WP_000351840 | IncHI-type conjugal transfer protein TrhB | traB |
| HFS61_RS24560 (HFS61_24550) | 119257..119769 | + | 513 | WP_000429933 | hypothetical protein | - |
| HFS61_RS24565 (HFS61_24555) | 119875..120627 | + | 753 | WP_010892304 | protein-disulfide isomerase HtdT | - |
| HFS61_RS24570 (HFS61_24560) | 120637..121587 | + | 951 | WP_001022266 | TraV family lipoprotein | traV |
| HFS61_RS24575 (HFS61_24565) | 121596..124277 | + | 2682 | WP_001255537 | IncHI-type conjugal transfer ATPase TrhC | virb4 |
| HFS61_RS24580 (HFS61_24570) | 124907..125212 | + | 306 | WP_123894138 | hypothetical protein | - |
| HFS61_RS24585 (HFS61_24575) | 125890..126063 | + | 174 | WP_153253763 | hypothetical protein | - |
| HFS61_RS24590 | 126094..126321 | + | 228 | WP_072080324 | hypothetical protein | - |
| HFS61_RS24595 (HFS61_24580) | 126347..126547 | - | 201 | WP_128485996 | hypothetical protein | - |
| HFS61_RS24600 (HFS61_24585) | 126909..127067 | + | 159 | WP_153253758 | hypothetical protein | - |
| HFS61_RS24605 (HFS61_24590) | 127564..128817 | + | 1254 | WP_001048869 | ParA family protein | - |
Host bacterium
| ID | 5832 | GenBank | NZ_CP053053 |
| Plasmid name | p28321a-1 | Incompatibility group | IncHI1B |
| Plasmid size | 219745 bp | Coordinate of oriT [Strand] | 55286..55570 [-] |
| Host baterium | Salmonella enterica subsp. enterica serovar Typhimurium strain CVM 28321-a |
Cargo genes
| Drug resistance gene | - |
| Virulence gene | - |
| Metal resistance gene | merR, merT, merP, merA, merD, merE |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |