Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 109643 |
| Name | oriT_C. koseri 0|P1  |
| Organism | Citrobacter koseri isolate 0 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_OW969712 (42047..42152 [+], 106 nt) |
| oriT length | 106 nt |
| IRs (inverted repeats) | 30..35, 41..46 (CCGCCG..CGGCGG) |
| Location of nic site | _ |
| Conserved sequence flanking the nic site |
_ |
| Note | Predicted by oriTfinder 2.0 |
oriT sequence
Download Length: 106 nt
>oriT_C. koseri 0|P1
AGTACGGGACAAGATGTGTTTTTGGAGTACCGCCGACACGCGGCGGCCGTCCAAAAACGTCTTGGTCAGGGCAAGCCCCGACACCCCCTAACGAGGTTAGCTATCT
AGTACGGGACAAGATGTGTTTTTGGAGTACCGCCGACACGCGGCGGCCGTCCAAAAACGTCTTGGTCAGGGCAAGCCCCGACACCCCCTAACGAGGTTAGCTATCT
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 6396 | GenBank | WP_004187323 |
| Name | Relaxase_LQV24_RS22295_C. koseri 0|P1 |
UniProt ID | A0A3U8KUL3 |
| Length | 659 a.a. | PDB ID | |
| Note | Predicted by oriTfinder 2.0 | ||
Relaxase protein sequence
Download Length: 659 a.a. Molecular weight: 75179.89 Da Isoelectric Point: 9.9948
>WP_004187323.1 MULTISPECIES: TraI/MobA(P) family conjugative relaxase [Enterobacterales]
MVIPKIIEGRRDKKSSFGQLIKYMADKPSQELTDTVQPTPETALAVKSDMFEGLNNYLTRKQKVISTPVD
VEPGVQRVVVGDVTCQYNTFSLDGAAQEMNSVSQQSTRCKDPVMHYVLSWPDYEKPNDDQVFDSVKFTLA
SMGMSDHQYVAAIHRDTDNLHVHVAVNRINPQTYKAASSSFTKDTLHQACRLLELKNGWSHSNGAYVVND
RQQIVRNPHSKKERGNWRSLDRINKMENKEGVETLYRYIVGDEQVGGSRQNLIHVSAGLREAKSWDDVHK
TFADIGLRVEKAQGKKGYVITHEHQNQKTAVKASLVFNKAQYTLKSMEERFGEYQPSHIEPAKVSVFKTA
YTPGAYRRDANKRLQRKIERAEERMLLKGRYRAYRNNLPIYSPDKDRIADEYRKIAQHTRLVKNNVRHSV
SDPHTRKLMYNLAEFKRLQAVANLRLSLREERNGFRAANPRLSYREWVEQEALKGDKAALSQMRGFAYSS
RKKEKYKQQLVEQIGFNRTFNAITSHDRDDVAVMASARHGVKPRLLKDGTVIFERDGKPVAADRGHIVLT
ESNGIDKEKTADLAIALTIAGKAKSVRVDGDGEFKELCCNRIVDAAVNHNHPVAQGITFTDAAQQAYAQN
EKHRLIREQNNSKNEMQFRSESDDKFNPK
MVIPKIIEGRRDKKSSFGQLIKYMADKPSQELTDTVQPTPETALAVKSDMFEGLNNYLTRKQKVISTPVD
VEPGVQRVVVGDVTCQYNTFSLDGAAQEMNSVSQQSTRCKDPVMHYVLSWPDYEKPNDDQVFDSVKFTLA
SMGMSDHQYVAAIHRDTDNLHVHVAVNRINPQTYKAASSSFTKDTLHQACRLLELKNGWSHSNGAYVVND
RQQIVRNPHSKKERGNWRSLDRINKMENKEGVETLYRYIVGDEQVGGSRQNLIHVSAGLREAKSWDDVHK
TFADIGLRVEKAQGKKGYVITHEHQNQKTAVKASLVFNKAQYTLKSMEERFGEYQPSHIEPAKVSVFKTA
YTPGAYRRDANKRLQRKIERAEERMLLKGRYRAYRNNLPIYSPDKDRIADEYRKIAQHTRLVKNNVRHSV
SDPHTRKLMYNLAEFKRLQAVANLRLSLREERNGFRAANPRLSYREWVEQEALKGDKAALSQMRGFAYSS
RKKEKYKQQLVEQIGFNRTFNAITSHDRDDVAVMASARHGVKPRLLKDGTVIFERDGKPVAADRGHIVLT
ESNGIDKEKTADLAIALTIAGKAKSVRVDGDGEFKELCCNRIVDAAVNHNHPVAQGITFTDAAQQAYAQN
EKHRLIREQNNSKNEMQFRSESDDKFNPK
Protein domains
Predicted by InterproScan.
Protein structure
| Source | ID | Structure |
|---|---|---|
| AlphaFold DB | A0A3U8KUL3 |
T4CP
| ID | 7026 | GenBank | WP_004206885 |
| Name | t4cp2_LQV24_RS21995_C. koseri 0|P1 |
UniProt ID | _ |
| Length | 695 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 695 a.a. Molecular weight: 79538.91 Da Isoelectric Point: 4.8317
>WP_004206885.1 MULTISPECIES: conjugal transfer protein TrbC [Enterobacterales]
MQQESVDSKKVLRPDGSFMEWFLTPNVQFGLLAILTVLGLFLPFTMLLSILILPPLMVAFTDRKFRPPLR
MPKDCEMFDDTLTTETQAEYRLGPIRIPHKVRERKKAKGILYVGYERGRLFGRELWLNMTDLLRHMVFFG
TTGSGKTETFYGFIVNFLLWCRGYCLSDGKADNKLAFATWSLARRFGREDDYYVLNLLTGSIDRFVNLVK
QESIPAQSNSVNLFSVAPPTFIIQLMESMLPQVGGDSAQWQDTAKAMMSALINALCYKRARGELLLSQRT
IQKNMSLPAMAALYVEAKKNGWHSEGYAALESYLENTPGFLLANAEYPETWEARAFEQHNYMSRQFLKTL
SLFNETYGHVFPEDSGDIRMDDIFHNDRILIVMIPSLELSRGEAATLGRLYVTLQRMTISKDLGYQLEGK
KEEVLLTHALNNQAPYGLIYDELGQYFTSGMDTLSAQMRSLEKMGVFSSQDHPSLARGANGEVDSLIANT
RVKYFESIEDRKTFEILRETVGQDYYSELSGQEAEHGTFSKTVREGDLYQIREKDRVNIRELRKQTEGQG
VISFQDALVRSAAFYIPDNEKFSSELPMRINRFIEVLPPSPATLYSIYPERKDDELAETNPDAMRFPPIK
LFGYDKAANSLLEKIEVFYELQCGAISPEEMSVCLFELFAEWLDGTETDDVLYHQEDDLFPMIEM
MQQESVDSKKVLRPDGSFMEWFLTPNVQFGLLAILTVLGLFLPFTMLLSILILPPLMVAFTDRKFRPPLR
MPKDCEMFDDTLTTETQAEYRLGPIRIPHKVRERKKAKGILYVGYERGRLFGRELWLNMTDLLRHMVFFG
TTGSGKTETFYGFIVNFLLWCRGYCLSDGKADNKLAFATWSLARRFGREDDYYVLNLLTGSIDRFVNLVK
QESIPAQSNSVNLFSVAPPTFIIQLMESMLPQVGGDSAQWQDTAKAMMSALINALCYKRARGELLLSQRT
IQKNMSLPAMAALYVEAKKNGWHSEGYAALESYLENTPGFLLANAEYPETWEARAFEQHNYMSRQFLKTL
SLFNETYGHVFPEDSGDIRMDDIFHNDRILIVMIPSLELSRGEAATLGRLYVTLQRMTISKDLGYQLEGK
KEEVLLTHALNNQAPYGLIYDELGQYFTSGMDTLSAQMRSLEKMGVFSSQDHPSLARGANGEVDSLIANT
RVKYFESIEDRKTFEILRETVGQDYYSELSGQEAEHGTFSKTVREGDLYQIREKDRVNIRELRKQTEGQG
VISFQDALVRSAAFYIPDNEKFSSELPMRINRFIEVLPPSPATLYSIYPERKDDELAETNPDAMRFPPIK
LFGYDKAANSLLEKIEVFYELQCGAISPEEMSVCLFELFAEWLDGTETDDVLYHQEDDLFPMIEM
Protein domains
No domain identified.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 44948..64237
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| LQV24_RS22275 (AN2353V1_4320) | 40032..40343 | + | 312 | WP_004187333 | hypothetical protein | - |
| LQV24_RS22280 (AN2353V1_4321) | 40476..41012 | + | 537 | WP_004187332 | hypothetical protein | - |
| LQV24_RS22285 (AN2353V1_4323) | 41514..41909 | - | 396 | WP_019725163 | hypothetical protein | - |
| LQV24_RS22290 | 41944..42471 | + | 528 | WP_172740549 | plasmid mobilization protein MobA | - |
| LQV24_RS22295 (AN2353V1_4325) | 42458..44437 | + | 1980 | WP_004187323 | TraI/MobA(P) family conjugative relaxase | - |
| LQV24_RS22300 (AN2353V1_4326) | 44451..44951 | + | 501 | WP_004187320 | DotD/TraH family lipoprotein | - |
| LQV24_RS22305 (AN2353V1_4327) | 44948..45727 | + | 780 | WP_004187315 | type IV secretory system conjugative DNA transfer family protein | traI |
| LQV24_RS22310 (AN2353V1_4328) | 45738..46901 | + | 1164 | WP_004187313 | plasmid transfer ATPase TraJ | virB11 |
| LQV24_RS22315 (AN2353V1_4329) | 46891..47151 | + | 261 | WP_004187310 | IcmT/TraK family protein | traK |
| LQV24_RS22320 (AN2353V1_4330) | 47176..50613 | + | 3438 | WP_015586048 | LPD7 domain-containing protein | - |
| LQV24_RS22325 (AN2353V1_4331) | 50579..51091 | + | 513 | WP_011091071 | hypothetical protein | traL |
| LQV24_RS22330 (AN2353V1_4332) | 51092..51304 | - | 213 | WP_305953721 | Hha/YmoA family nucleoid-associated regulatory protein | - |
| LQV24_RS22335 (AN2353V1_4333) | 51276..51686 | - | 411 | WP_004187465 | H-NS family nucleoid-associated regulatory protein | - |
| LQV24_RS22340 (AN2353V1_4334) | 51754..52467 | + | 714 | WP_004187467 | DotI/IcmL family type IV secretion protein | traM |
| LQV24_RS22345 (AN2353V1_4335) | 52476..53627 | + | 1152 | WP_004187471 | DotH/IcmK family type IV secretion protein | traN |
| LQV24_RS22350 (AN2353V1_4336) | 53639..54988 | + | 1350 | WP_004187474 | conjugal transfer protein TraO | traO |
| LQV24_RS22355 (AN2353V1_4337) | 55000..55704 | + | 705 | WP_031942491 | conjugal transfer protein TraP | traP |
| LQV24_RS22360 (AN2353V1_4338) | 55728..56258 | + | 531 | WP_104011266 | conjugal transfer protein TraQ | traQ |
| LQV24_RS22365 (AN2353V1_4339) | 56275..56664 | + | 390 | WP_011091078 | DUF6750 family protein | traR |
| LQV24_RS22370 (AN2353V1_4340) | 56710..57204 | + | 495 | WP_011091080 | hypothetical protein | - |
| LQV24_RS22375 (AN2353V1_4341) | 57201..60251 | + | 3051 | WP_031942490 | plasmid transfer protein | traU |
| LQV24_RS22380 (AN2353V1_4342) | 60248..61456 | + | 1209 | WP_011091082 | conjugal transfer protein TraW | traW |
| LQV24_RS22385 (AN2353V1_4343) | 61453..62049 | + | 597 | WP_015060003 | hypothetical protein | - |
| LQV24_RS22390 (AN2353V1_4344) | 62042..64237 | + | 2196 | WP_015062834 | DotA/TraY family protein | traY |
| LQV24_RS22395 | 64239..64892 | + | 654 | WP_015060005 | hypothetical protein | - |
| LQV24_RS22400 (AN2353V1_4346) | 64973..65203 | + | 231 | WP_011091085 | IncL/M type plasmid replication protein RepC | - |
Host bacterium
| ID | 10078 | GenBank | NZ_OW969712 |
| Plasmid name | C. koseri 0|P1 | Incompatibility group | IncL/M |
| Plasmid size | 65498 bp | Coordinate of oriT [Strand] | 42047..42152 [+] |
| Host baterium | Citrobacter koseri isolate 0 |
Cargo genes
| Drug resistance gene | blaOXA-48 |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |