Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 115411 |
| Name | oriT_pHNGDR11  |
| Organism | Enterobacter cloacae strain GHZ8R11B |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_MK966141 (31983..32088 [+], 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_pHNGDR11
AGTACGGGACAAGATGTGTTTTTGGAGTACCGCCGACACGCGGCGGCCGTCCAAAAACGTCTTGGTCAGGGCAAGCCCCGACACCCCCTAACGAGGTTAGCTATCT
AGTACGGGACAAGATGTGTTTTTGGAGTACCGCCGACACGCGGCGGCCGTCCAAAAACGTCTTGGTCAGGGCAAGCCCCGACACCCCCTAACGAGGTTAGCTATCT
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 9861 | GenBank | WP_004187323 |
| Name | traI_H5D12_RS00280_pHNGDR11 |
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 | 11497 | GenBank | WP_004206885 |
| Name | t4cp2_H5D12_RS00395_pHNGDR11 |
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: 34884..62092
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| H5D12_RS00260 | 29968..30279 | + | 312 | WP_004187333 | hypothetical protein | - |
| H5D12_RS00265 | 30412..30948 | + | 537 | WP_004187332 | hypothetical protein | - |
| H5D12_RS00270 | 31450..31845 | - | 396 | WP_019725163 | hypothetical protein | - |
| H5D12_RS00430 | 31844..32407 | + | 564 | WP_020277892 | plasmid mobilization protein MobA | - |
| H5D12_RS00280 | 32394..34373 | + | 1980 | WP_004187323 | TraI/MobA(P) family conjugative relaxase | - |
| H5D12_RS00285 | 34387..34887 | + | 501 | WP_004187320 | DotD/TraH family lipoprotein | - |
| H5D12_RS00290 | 34884..35663 | + | 780 | WP_004187315 | type IV secretory system conjugative DNA transfer family protein | traI |
| H5D12_RS00295 | 35674..36837 | + | 1164 | WP_004187313 | plasmid transfer ATPase TraJ | virB11 |
| H5D12_RS00300 | 36827..37087 | + | 261 | WP_004187310 | IcmT/TraK family protein | traK |
| H5D12_RS00420 | 37112..40414 | + | 3303 | WP_220125491 | LPD7 domain-containing protein | - |
| H5D12_RS00310 | 40380..40892 | + | 513 | WP_011091071 | hypothetical protein | traL |
| H5D12_RS00315 | 40893..41090 | - | 198 | WP_004187464 | Hha/YmoA family nucleoid-associated regulatory protein | - |
| H5D12_RS00320 | 41077..41487 | - | 411 | WP_004187465 | H-NS family nucleoid-associated regulatory protein | - |
| H5D12_RS00325 | 41486..42268 | + | 783 | WP_015058941 | DotI/IcmL family type IV secretion protein | traM |
| H5D12_RS00330 | 42277..43428 | + | 1152 | WP_004187471 | DotH/IcmK family type IV secretion protein | traN |
| H5D12_RS00335 | 43440..44789 | + | 1350 | WP_004187474 | conjugal transfer protein TraO | traO |
| H5D12_RS00340 | 44801..45505 | + | 705 | WP_015060002 | conjugal transfer protein TraP | traP |
| H5D12_RS00345 | 45529..46059 | + | 531 | WP_004187478 | conjugal transfer protein TraQ | traQ |
| H5D12_RS00350 | 46076..46465 | + | 390 | WP_004187479 | DUF6750 family protein | traR |
| H5D12_RS00355 | 46511..47005 | + | 495 | WP_004187480 | hypothetical protein | - |
| H5D12_RS00360 | 47002..50052 | + | 3051 | WP_004187482 | hypothetical protein | traU |
| H5D12_RS00365 | 50049..51257 | + | 1209 | WP_011091082 | conjugal transfer protein TraW | traW |
| H5D12_RS00370 | 51254..51850 | + | 597 | WP_015060003 | hypothetical protein | - |
| H5D12_RS00375 | 51843..54038 | + | 2196 | WP_015062834 | DotA/TraY family protein | traY |
| H5D12_RS00380 | 54040..54693 | + | 654 | WP_015060005 | hypothetical protein | - |
| H5D12_RS00385 | 54762..55004 | + | 243 | WP_023893611 | IncL/M type plasmid replication protein RepC | - |
| H5D12_RS00390 | 55288..56355 | + | 1068 | WP_019725043 | plasmid replication initiator RepA | - |
| H5D12_RS00435 | 57578..57673 | + | 96 | WP_004206884 | DinQ-like type I toxin DqlB | - |
| H5D12_RS00395 | 57724..59811 | - | 2088 | WP_004206885 | conjugal transfer protein TrbC | - |
| H5D12_RS00400 | 59824..60774 | - | 951 | WP_004206886 | DsbC family protein | trbB |
| H5D12_RS00405 | 60785..62092 | - | 1308 | WP_015059988 | hypothetical protein | trbA |
| H5D12_RS00410 | 62092..62448 | - | 357 | WP_015586032 | lytic transglycosylase domain-containing protein | - |
| H5D12_RS00415 | 62592..62987 | - | 396 | WP_015059989 | DUF1496 domain-containing protein | - |
| H5D12_RS00005 | 63055..63489 | + | 435 | Protein_83 | CPBP family intramembrane glutamate endopeptidase | - |
Host bacterium
| ID | 15844 | GenBank | NZ_MK966141 |
| Plasmid name | pHNGDR11 | Incompatibility group | IncL/M |
| Plasmid size | 63490 bp | Coordinate of oriT [Strand] | 31983..32088 [+] |
| Host baterium | Enterobacter cloacae strain GHZ8R11B |
Cargo genes
| Drug resistance gene | blaOXA-48 |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |