Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 115413 |
| Name | oriT_pCEX6  |
| Organism | Enterobacter cloacae strain CEX6 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_LC556219 (28193..28298 [-], 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_pCEX6
AGTACGGGACAAGATGTGTTTTTGGAGTACCGCCGACACGCGGCGGCCGTCCAAAAACGTCTTGGTCAGGGCAAGCCCCGACACCCCCTAACGAGGTTAGCTATCT
AGTACGGGACAAGATGTGTTTTTGGAGTACCGCCGACACGCGGCGGCCGTCCAAAAACGTCTTGGTCAGGGCAAGCCCCGACACCCCCTAACGAGGTTAGCTATCT
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 9863 | GenBank | WP_050868819 |
| Name | traI_H5B52_RS00125_pCEX6 |
UniProt ID | A0A142BMF1 |
| Length | 659 a.a. | PDB ID | |
| Note | Predicted by oriTfinder 2.0 | ||
Relaxase protein sequence
Download Length: 659 a.a. Molecular weight: 75234.98 Da Isoelectric Point: 10.0285
>WP_050868819.1 MULTISPECIES: TraI/MobA(P) family conjugative relaxase [Enterobacterales]
MVIPKIIEGRRDKKSSFGQLIKYMADKPSQELTDTVQPTPETALAVKSDMFEGLNNYLTRKQKVISTPVD
VEPGVQRVVVGDVTCQYNTFSLDGAAQEMNSVSQQSTRCKDPVMHYVLSWPDYEKPNDDQVFDSVKFTLA
SMGMSDHQYVAAIHRDTDNLHVHVAVNRINPQTYKAASSSFTKDTLHQACRLLELKNGWSHSNGAYVVND
RQQIVRNPHSKKERGNWRSLDRINKMENKEGVETLYRYIVGDEQVGGSRQNLIHVSAGLREAKSWDDVHK
TFADIGLRVEKAQGKKGYVITHEHQNQKTAVKASLVFNKAQYTLKSMEERFGEYQPSHIEPAKVSVFKTA
YTPGAYRRDANKRLQRKIERAEERMLLKGRYRAYRNNLPVYSPDKDRIADEYRKIAQHTRLVKNNVRHSV
SDPHTRKLMYNLAEFKRLQAVANLRLSLREERNGFRAANPRLSYREWVEQEALKGDKAALSQMRGFAYSS
RKKEKYKQQLVEQIGFNRTFNAITSHDRDDVAVMASARHGVKPRLLKDGTVIFERDGKPVAADRGHIVLT
ESNGIDKEKTADLAIALTIAGKAKSVRVDGDGEFKELCCNRIVDAAVNHNHPVAQGITFTDAAQQAYAQN
EKHRLIREQNNSKNEMQFRSERDDKFNPK
MVIPKIIEGRRDKKSSFGQLIKYMADKPSQELTDTVQPTPETALAVKSDMFEGLNNYLTRKQKVISTPVD
VEPGVQRVVVGDVTCQYNTFSLDGAAQEMNSVSQQSTRCKDPVMHYVLSWPDYEKPNDDQVFDSVKFTLA
SMGMSDHQYVAAIHRDTDNLHVHVAVNRINPQTYKAASSSFTKDTLHQACRLLELKNGWSHSNGAYVVND
RQQIVRNPHSKKERGNWRSLDRINKMENKEGVETLYRYIVGDEQVGGSRQNLIHVSAGLREAKSWDDVHK
TFADIGLRVEKAQGKKGYVITHEHQNQKTAVKASLVFNKAQYTLKSMEERFGEYQPSHIEPAKVSVFKTA
YTPGAYRRDANKRLQRKIERAEERMLLKGRYRAYRNNLPVYSPDKDRIADEYRKIAQHTRLVKNNVRHSV
SDPHTRKLMYNLAEFKRLQAVANLRLSLREERNGFRAANPRLSYREWVEQEALKGDKAALSQMRGFAYSS
RKKEKYKQQLVEQIGFNRTFNAITSHDRDDVAVMASARHGVKPRLLKDGTVIFERDGKPVAADRGHIVLT
ESNGIDKEKTADLAIALTIAGKAKSVRVDGDGEFKELCCNRIVDAAVNHNHPVAQGITFTDAAQQAYAQN
EKHRLIREQNNSKNEMQFRSERDDKFNPK
Protein domains
Predicted by InterproScan.
Protein structure
| Source | ID | Structure |
|---|---|---|
| AlphaFold DB | A0A142BMF1 |
T4CP
| ID | 11500 | GenBank | WP_011091092 |
| Name | t4cp2_H5B52_RS00415_pCEX6 |
UniProt ID | _ |
| Length | 695 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 695 a.a. Molecular weight: 79491.81 Da Isoelectric Point: 4.8270
>WP_011091092.1 MULTISPECIES: hypothetical protein [Gammaproteobacteria]
MQQESVDSKKVIRPDGSFMEWFLTPNVQFGLLAILTVLGLFLPFTMLLSILILPPLMVAFTDRKFRPPLR
MPKDCEMFDDTLTTETQAEYRLGPIRIPHKVRERKKAKGILYVGYERGRLFGRELWLNMTDLLRHMVFFG
TTGSGKTETFYGFIVNFLLWCRGYCLSDGKADNKLAFATWSLARRFGREDDYYVLNLLTGSIDRFVNLVK
QESIPAQSNSVNLFSVAPPTFIIQLMESMLPQVGGDSAQWQDTAKAMMSALINALCYKRARGELLLSQRT
IQKNMSLPAMAALYVEAKKNGWHSEGYAALESYLENTPGFLLANAEYPETWEARAFEQHNYMSRQFLKTL
SLFNETYGHVFPEDSGDIRMDDIFHNDRILIVMIPSLELSRGEAATLGRLYVTLQRMTISKDLGYQLEGK
KEEVLLTHALNNQAPYGLIYDELGQYFTSGMDTLSAQMRSLEKMGVFSSQDHPSLARGANGEVDSLIANT
RVKYFESIEDRKTFEILRETVGQDYYSELSGQEAEHGTFSKTVREGDLYQIREKDRVNIRELRKQTEGQG
VISFQDALVRSAAFYIPDNEKFSSELPMRINRFIEVLPPSPATLYSIYPERKDDELAETNPDAMHFPPIK
LFGYDKAANSLLEKIEVFYELQCGAISPEEMSVCLFELFADWLDGTDTDDVLYHQEDDLFPMIEM
MQQESVDSKKVIRPDGSFMEWFLTPNVQFGLLAILTVLGLFLPFTMLLSILILPPLMVAFTDRKFRPPLR
MPKDCEMFDDTLTTETQAEYRLGPIRIPHKVRERKKAKGILYVGYERGRLFGRELWLNMTDLLRHMVFFG
TTGSGKTETFYGFIVNFLLWCRGYCLSDGKADNKLAFATWSLARRFGREDDYYVLNLLTGSIDRFVNLVK
QESIPAQSNSVNLFSVAPPTFIIQLMESMLPQVGGDSAQWQDTAKAMMSALINALCYKRARGELLLSQRT
IQKNMSLPAMAALYVEAKKNGWHSEGYAALESYLENTPGFLLANAEYPETWEARAFEQHNYMSRQFLKTL
SLFNETYGHVFPEDSGDIRMDDIFHNDRILIVMIPSLELSRGEAATLGRLYVTLQRMTISKDLGYQLEGK
KEEVLLTHALNNQAPYGLIYDELGQYFTSGMDTLSAQMRSLEKMGVFSSQDHPSLARGANGEVDSLIANT
RVKYFESIEDRKTFEILRETVGQDYYSELSGQEAEHGTFSKTVREGDLYQIREKDRVNIRELRKQTEGQG
VISFQDALVRSAAFYIPDNEKFSSELPMRINRFIEVLPPSPATLYSIYPERKDDELAETNPDAMHFPPIK
LFGYDKAANSLLEKIEVFYELQCGAISPEEMSVCLFELFADWLDGTDTDDVLYHQEDDLFPMIEM
Protein domains
No domain identified.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 6294..25397
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| H5B52_RS00010 | 2116..2976 | + | 861 | WP_000027057 | broad-spectrum class A beta-lactamase TEM-1 | - |
| H5B52_RS00015 | 3980..5047 | - | 1068 | WP_050868820 | plasmid replication initiator RepA | - |
| H5B52_RS00020 | 5333..5581 | - | 249 | WP_015062836 | IncL/M type plasmid replication protein RepC | - |
| H5B52_RS00025 | 5638..6291 | - | 654 | WP_011091084 | hypothetical protein | - |
| H5B52_RS00030 | 6294..8474 | - | 2181 | WP_004187492 | DotA/TraY family protein | traY |
| H5B52_RS00035 | 8467..9117 | - | 651 | WP_011091083 | hypothetical protein | - |
| H5B52_RS00040 | 9114..10322 | - | 1209 | WP_011091082 | conjugal transfer protein TraW | traW |
| H5B52_RS00045 | 10319..13369 | - | 3051 | WP_011091081 | hypothetical protein | traU |
| H5B52_RS00050 | 13366..13860 | - | 495 | WP_011091080 | hypothetical protein | - |
| H5B52_RS00055 | 13906..14295 | - | 390 | WP_011091078 | DUF6750 family protein | traR |
| H5B52_RS00060 | 14312..14842 | - | 531 | WP_011091077 | conjugal transfer protein TraQ | traQ |
| H5B52_RS00065 | 14866..15570 | - | 705 | WP_011091076 | conjugal transfer protein TraP | traP |
| H5B52_RS00070 | 15582..16931 | - | 1350 | WP_011091075 | conjugal transfer protein TraO | traO |
| H5B52_RS00075 | 16943..18094 | - | 1152 | WP_011091074 | DotH/IcmK family type IV secretion protein | traN |
| H5B52_RS00080 | 18103..18885 | - | 783 | WP_011091073 | DotI/IcmL family type IV secretion protein | traM |
| H5B52_RS00085 | 18884..19294 | + | 411 | WP_004187465 | H-NS family nucleoid-associated regulatory protein | - |
| H5B52_RS00090 | 19281..19478 | + | 198 | WP_004187464 | Hha/YmoA family nucleoid-associated regulatory protein | - |
| H5B52_RS00095 | 19479..20033 | - | 555 | WP_011154467 | hypothetical protein | traL |
| H5B52_RS00465 | 19957..23169 | - | 3213 | WP_011091070 | LPD7 domain-containing protein | - |
| H5B52_RS00105 | 23194..23454 | - | 261 | WP_004187310 | IcmT/TraK family protein | traK |
| H5B52_RS00110 | 23444..24607 | - | 1164 | WP_004187313 | plasmid transfer ATPase TraJ | virB11 |
| H5B52_RS00115 | 24618..25397 | - | 780 | WP_004187315 | type IV secretory system conjugative DNA transfer family protein | traI |
| H5B52_RS00120 | 25394..25894 | - | 501 | WP_004187320 | DotD/TraH family lipoprotein | - |
| H5B52_RS00125 | 25908..27887 | - | 1980 | WP_050868819 | TraI/MobA(P) family conjugative relaxase | - |
| H5B52_RS00470 | 27874..28452 | - | 579 | WP_223811519 | plasmid mobilization protein MobA | - |
| H5B52_RS00135 | 28467..28832 | + | 366 | WP_011091067 | hypothetical protein | - |
| H5B52_RS00140 | 29333..29869 | - | 537 | WP_011091066 | hypothetical protein | - |
| H5B52_RS00145 | 30002..30313 | - | 312 | WP_011091065 | hypothetical protein | - |
Host bacterium
| ID | 15846 | GenBank | NZ_LC556219 |
| Plasmid name | pCEX6 | Incompatibility group | IncL/M |
| Plasmid size | 74041 bp | Coordinate of oriT [Strand] | 28193..28298 [-] |
| Host baterium | Enterobacter cloacae strain CEX6 |
Cargo genes
| Drug resistance gene | blaTEM-1B, blaCTX-M-3, aac(3)-IId |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |