Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 103613 |
| Name | oriT_22|P3  |
| Organism | Citrobacter freundii isolate 22 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_OW849530 (40119..40224 [+], 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_22|P3
AGTACGGGACAAGATGTGTTTTTGGAGTACCGCCGACACGCGGCGGCCGTCCAAAAACGTCTTGGTCAGGGCAAGCCCCGACACCCCCTAACGAGGTTAGCTATCT
AGTACGGGACAAGATGTGTTTTTGGAGTACCGCCGACACGCGGCGGCCGTCCAAAAACGTCTTGGTCAGGGCAAGCCCCGACACCCCCTAACGAGGTTAGCTATCT
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 2698 | GenBank | WP_004187323 |
| Name | Relaxase_LQ181_RS27510_22|P3 |
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 | 2526 | GenBank | WP_004206885 |
| Name | t4cp2_LQ181_RS27215_22|P3 |
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: 43020..62309
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| LQ181_RS27490 (AI2661V1_5363) | 38104..38415 | + | 312 | WP_004187333 | hypothetical protein | - |
| LQ181_RS27495 (AI2661V1_5364) | 38548..39084 | + | 537 | WP_004187332 | hypothetical protein | - |
| LQ181_RS27500 (AI2661V1_5366) | 39586..39981 | - | 396 | WP_019725163 | hypothetical protein | - |
| LQ181_RS27505 | 40016..40543 | + | 528 | WP_172740549 | plasmid mobilization protein MobA | - |
| LQ181_RS27510 (AI2661V1_5368) | 40530..42509 | + | 1980 | WP_004187323 | TraI/MobA(P) family conjugative relaxase | - |
| LQ181_RS27515 (AI2661V1_5369) | 42523..43023 | + | 501 | WP_004187320 | DotD/TraH family lipoprotein | - |
| LQ181_RS27520 (AI2661V1_5370) | 43020..43799 | + | 780 | WP_004187315 | type IV secretory system conjugative DNA transfer family protein | traI |
| LQ181_RS27525 (AI2661V1_5371) | 43810..44973 | + | 1164 | WP_004187313 | plasmid transfer ATPase TraJ | virB11 |
| LQ181_RS27530 (AI2661V1_5372) | 44963..45223 | + | 261 | WP_004187310 | IcmT/TraK family protein | traK |
| LQ181_RS27535 (AI2661V1_5373) | 45248..48685 | + | 3438 | WP_015586048 | LPD7 domain-containing protein | - |
| LQ181_RS27540 (AI2661V1_5374) | 48651..49163 | + | 513 | WP_011091071 | hypothetical protein | traL |
| LQ181_RS27545 (AI2661V1_5375) | 49164..49376 | - | 213 | WP_305953721 | Hha/YmoA family nucleoid-associated regulatory protein | - |
| LQ181_RS27550 (AI2661V1_5376) | 49348..49758 | - | 411 | WP_004187465 | H-NS family nucleoid-associated regulatory protein | - |
| LQ181_RS27555 (AI2661V1_5377) | 49826..50539 | + | 714 | WP_004187467 | DotI/IcmL family type IV secretion protein | traM |
| LQ181_RS27560 (AI2661V1_5378) | 50548..51699 | + | 1152 | WP_004187471 | DotH/IcmK family type IV secretion protein | traN |
| LQ181_RS27565 (AI2661V1_5379) | 51711..53060 | + | 1350 | WP_004187474 | conjugal transfer protein TraO | traO |
| LQ181_RS27570 (AI2661V1_5380) | 53072..53776 | + | 705 | WP_015060002 | conjugal transfer protein TraP | traP |
| LQ181_RS27575 (AI2661V1_5381) | 53800..54330 | + | 531 | WP_004187478 | conjugal transfer protein TraQ | traQ |
| LQ181_RS27580 (AI2661V1_5382) | 54347..54736 | + | 390 | WP_004187479 | DUF6750 family protein | traR |
| LQ181_RS27585 (AI2661V1_5383) | 54782..55276 | + | 495 | WP_004187480 | hypothetical protein | - |
| LQ181_RS27590 (AI2661V1_5384) | 55273..58323 | + | 3051 | WP_004187482 | hypothetical protein | traU |
| LQ181_RS27595 (AI2661V1_5385) | 58320..59528 | + | 1209 | WP_011091082 | conjugal transfer protein TraW | traW |
| LQ181_RS27600 (AI2661V1_5386) | 59525..60121 | + | 597 | WP_015060003 | hypothetical protein | - |
| LQ181_RS27605 (AI2661V1_5387) | 60114..62309 | + | 2196 | WP_015062834 | DotA/TraY family protein | traY |
| LQ181_RS27610 (AI2661V1_5388) | 62311..62964 | + | 654 | WP_015060005 | hypothetical protein | - |
| LQ181_RS27615 (AI2661V1_5389) | 63045..63275 | + | 231 | WP_011091085 | IncL/M type plasmid replication protein RepC | - |
Host bacterium
| ID | 4056 | GenBank | NZ_OW849530 |
| Plasmid name | 22|P3 | Incompatibility group | IncL/M |
| Plasmid size | 63570 bp | Coordinate of oriT [Strand] | 40119..40224 [+] |
| Host baterium | Citrobacter freundii isolate 22 |
Cargo genes
| Drug resistance gene | blaOXA-48 |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |