Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 116862 |
| Name | oriT_BB1502_pRMTE4  |
| Organism | Klebsiella quasipneumoniae isolate BB1502 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_OV754000 (55063..55168 [+], 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_BB1502_pRMTE4
AGTACGGGACAAGATGTGTTTTTGGAGTACCGCCGACACGCGGCGGCCGTCCAAAAACGTCTTGGTCAGGGCAAGCCCCGACACCCCCTAACGAGGTTAGCTATCT
AGTACGGGACAAGATGTGTTTTTGGAGTACCGCCGACACGCGGCGGCCGTCCAAAAACGTCTTGGTCAGGGCAAGCCCCGACACCCCCTAACGAGGTTAGCTATCT
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 10757 | GenBank | WP_004187323 |
| Name | traI_O1Y77_RS28375_BB1502_pRMTE4 |
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 | 12565 | GenBank | WP_004187443 |
| Name | t4cp2_O1Y77_RS28110_BB1502_pRMTE4 |
UniProt ID | _ |
| Length | 695 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 695 a.a. Molecular weight: 79519.87 Da Isoelectric Point: 4.8309
>WP_004187443.1 MULTISPECIES: hypothetical protein [Enterobacterales]
MQQESVDSKKVIRPDGSFMEWFLTPNVQFGLLAILTVLGLFLPFTMLLSILILPPLMVAFTDRKFRPPLR
MPKDCEMFDDTLTTETQAEYRLGPIRIPHKVRERKKAKGILYVGYERGRLFGRELWLNMTDLLRHMVFFG
TTGSGKTETFYGFIVNFLLWCRGYCLSDGKADNKLAFATWSLARRFGREDDYYVLNLLTGSIDRFVNLVK
QESIPAQSNSVNLFSVAPPTFIIQLMESMLPQVGGDSAQWQDTAKAMMSALINALCYKRARGELLLSQRT
IQKNMSLPAMAALYVEAKKNGWHSEGYAALESYLENTPGFLLANAEYPETWEARAFEQHNYMSRQFLKTL
SLFNETYGHVFPEDSGDIRMDDIFHNDRILIVMIPSLELSRGEAATLGRLYVTLQRMTISKDLGYQLEGK
KEEVLLTHALNNQAPYGLIYDELGQYFTSGMDTLSAQMRSLEKMGVFSSQDHPSLARGANGEVDSLIANT
RVKYFESIEDRKTFEILRETVGQDYYSELSGQEAEHGTFSKTVREGDLYQIREKDRVNIRELRKQTEGQG
VISFQDALVRSAAFYIPDNEKFSSELPMRINRFIEVLPPSPATLYSIYPERKDDELAETNPDAMHFPPIK
LFGYDKAANSLLEKIEVFYELQCGAISPEEMSVCLFELFAEWLDGTETDDVLYHQEDDLFPMIEM
MQQESVDSKKVIRPDGSFMEWFLTPNVQFGLLAILTVLGLFLPFTMLLSILILPPLMVAFTDRKFRPPLR
MPKDCEMFDDTLTTETQAEYRLGPIRIPHKVRERKKAKGILYVGYERGRLFGRELWLNMTDLLRHMVFFG
TTGSGKTETFYGFIVNFLLWCRGYCLSDGKADNKLAFATWSLARRFGREDDYYVLNLLTGSIDRFVNLVK
QESIPAQSNSVNLFSVAPPTFIIQLMESMLPQVGGDSAQWQDTAKAMMSALINALCYKRARGELLLSQRT
IQKNMSLPAMAALYVEAKKNGWHSEGYAALESYLENTPGFLLANAEYPETWEARAFEQHNYMSRQFLKTL
SLFNETYGHVFPEDSGDIRMDDIFHNDRILIVMIPSLELSRGEAATLGRLYVTLQRMTISKDLGYQLEGK
KEEVLLTHALNNQAPYGLIYDELGQYFTSGMDTLSAQMRSLEKMGVFSSQDHPSLARGANGEVDSLIANT
RVKYFESIEDRKTFEILRETVGQDYYSELSGQEAEHGTFSKTVREGDLYQIREKDRVNIRELRKQTEGQG
VISFQDALVRSAAFYIPDNEKFSSELPMRINRFIEVLPPSPATLYSIYPERKDDELAETNPDAMHFPPIK
LFGYDKAANSLLEKIEVFYELQCGAISPEEMSVCLFELFAEWLDGTETDDVLYHQEDDLFPMIEM
Protein domains
No domain identified.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 57964..77276
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| O1Y77_RS28355 (VKR_05665) | 53049..53360 | + | 312 | WP_011154461 | hypothetical protein | - |
| O1Y77_RS28360 (VKR_05666) | 53493..54029 | + | 537 | WP_040119830 | hypothetical protein | - |
| O1Y77_RS28365 (VKR_05668) | 54530..54925 | - | 396 | WP_170934351 | MobC | - |
| O1Y77_RS28370 (VKR_05669) | 54960..55487 | + | 528 | WP_172740549 | plasmid mobilization protein MobA | - |
| O1Y77_RS28375 (VKR_05670) | 55474..57453 | + | 1980 | WP_004187323 | TraI/MobA(P) family conjugative relaxase | - |
| O1Y77_RS28380 (VKR_05671) | 57467..57967 | + | 501 | WP_004187320 | DotD/TraH family lipoprotein | - |
| O1Y77_RS28385 (VKR_05672) | 57964..58743 | + | 780 | WP_004187315 | type IV secretory system conjugative DNA transfer family protein | traI |
| O1Y77_RS28390 (VKR_05673) | 58754..59917 | + | 1164 | WP_101976005 | plasmid transfer ATPase TraJ | virB11 |
| O1Y77_RS28395 (VKR_05674) | 59907..60167 | + | 261 | WP_004187310 | IcmT/TraK family protein | traK |
| O1Y77_RS28400 (VKR_05675) | 60192..63674 | + | 3483 | WP_227022524 | LPD7 domain-containing protein | - |
| O1Y77_RS28405 (VKR_05676) | 63640..64152 | + | 513 | WP_011091071 | hypothetical protein | traL |
| O1Y77_RS28410 | 64153..64365 | - | 213 | WP_306458688 | Hha/YmoA family nucleoid-associated regulatory protein | - |
| O1Y77_RS28415 (VKR_05677) | 64337..64747 | - | 411 | WP_040027863 | H-NS family nucleoid-associated regulatory protein | - |
| O1Y77_RS28420 (VKR_05678) | 64815..65528 | + | 714 | WP_223430951 | DotI/IcmL family type IV secretion protein | traM |
| O1Y77_RS28425 (VKR_05679) | 65537..66667 | + | 1131 | WP_077255002 | DotH/IcmK family type IV secretion protein | traN |
| O1Y77_RS28430 (VKR_05680) | 66679..67479 | + | 801 | WP_268738060 | hypothetical protein | traO |
| O1Y77_RS28435 (VKR_05681) | 67374..68027 | + | 654 | WP_268738062 | conjugal transfer protein TraO | traO |
| O1Y77_RS28440 (VKR_05682) | 68039..68743 | + | 705 | WP_040119747 | conjugal transfer protein TraP | traP |
| O1Y77_RS28445 (VKR_05683) | 68767..69297 | + | 531 | WP_011091077 | conjugal transfer protein TraQ | traQ |
| O1Y77_RS28450 (VKR_05684) | 69314..69703 | + | 390 | WP_011091078 | DUF6750 family protein | traR |
| O1Y77_RS28455 (VKR_05685) | 69749..70243 | + | 495 | WP_011091080 | hypothetical protein | - |
| O1Y77_RS28460 (VKR_05686) | 70240..73290 | + | 3051 | WP_040119746 | conjugal transfer protein | traU |
| O1Y77_RS28465 (VKR_05687) | 73287..74495 | + | 1209 | WP_004187486 | conjugal transfer protein TraW | traW |
| O1Y77_RS28470 (VKR_05688) | 74492..75088 | + | 597 | WP_015060003 | hypothetical protein | - |
| O1Y77_RS28475 (VKR_05689) | 75081..77276 | + | 2196 | WP_015062834 | DotA/TraY family protein | traY |
| O1Y77_RS28480 (VKR_05690) | 77278..77931 | + | 654 | WP_040119745 | hypothetical protein | - |
| O1Y77_RS28485 (VKR_05691) | 77995..78243 | + | 249 | WP_015062836 | IncL/M type plasmid replication protein RepC | - |
Host bacterium
| ID | 17295 | GenBank | NZ_OV754000 |
| Plasmid name | BB1502_pRMTE4 | Incompatibility group | IncL/M |
| Plasmid size | 78539 bp | Coordinate of oriT [Strand] | 55063..55168 [+] |
| Host baterium | Klebsiella quasipneumoniae isolate BB1502 |
Cargo genes
| Drug resistance gene | aac(6')-Ib-cr, blaOXA-1, blaCTX-M-15, blaTEM-1B, rmtE |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |