Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 116012 |
| Name | oriT_pIsolateC_B  |
| Organism | Enterobacter hormaechei strain isolateC |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_CP135496 (58090..58195 [+], 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_pIsolateC_B
AGTACGGGACAAGATGTGTTTTTGGAGTACCGCCGACACGCGGCGGCCGTCCAAAAACGTCTTGGTCAGGGCAAGCCCCGACACCCCCTAACGAGGTTAGCTATCT
AGTACGGGACAAGATGTGTTTTTGGAGTACCGCCGACACGCGGCGGCCGTCCAAAAACGTCTTGGTCAGGGCAAGCCCCGACACCCCCTAACGAGGTTAGCTATCT
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 10236 | GenBank | WP_004187323 |
| Name | traI_RRL17_RS24575_pIsolateC_B |
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 | 11960 | GenBank | WP_004206885 |
| Name | t4cp2_RRL17_RS24305_pIsolateC_B |
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: 32..26585
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| RRL17_RS24200 (RRL17_24200) | 32..1195 | + | 1164 | WP_004187313 | plasmid transfer ATPase TraJ | virB11 |
| RRL17_RS24205 (RRL17_24205) | 1185..1445 | + | 261 | WP_004187310 | IcmT/TraK family protein | traK |
| RRL17_RS24210 (RRL17_24210) | 1470..4907 | + | 3438 | WP_015586048 | LPD7 domain-containing protein | - |
| RRL17_RS24215 (RRL17_24215) | 4873..5385 | + | 513 | WP_011091071 | hypothetical protein | traL |
| RRL17_RS24220 (RRL17_24220) | 5386..5598 | - | 213 | WP_305953721 | Hha/YmoA family nucleoid-associated regulatory protein | - |
| RRL17_RS24225 (RRL17_24225) | 5570..5980 | - | 411 | WP_004187465 | H-NS family nucleoid-associated regulatory protein | - |
| RRL17_RS24230 (RRL17_24230) | 6048..6761 | + | 714 | WP_004187467 | DotI/IcmL family type IV secretion protein | traM |
| RRL17_RS24235 (RRL17_24235) | 6770..7921 | + | 1152 | WP_004187471 | DotH/IcmK family type IV secretion protein | traN |
| RRL17_RS24240 (RRL17_24240) | 7933..9282 | + | 1350 | WP_004187474 | conjugal transfer protein TraO | traO |
| RRL17_RS24245 (RRL17_24245) | 9294..9998 | + | 705 | WP_015060002 | conjugal transfer protein TraP | traP |
| RRL17_RS24250 (RRL17_24250) | 10022..10552 | + | 531 | WP_004187478 | conjugal transfer protein TraQ | traQ |
| RRL17_RS24255 (RRL17_24255) | 10569..10958 | + | 390 | WP_004187479 | DUF6750 family protein | traR |
| RRL17_RS24260 (RRL17_24260) | 11004..11498 | + | 495 | WP_004187480 | hypothetical protein | - |
| RRL17_RS24265 (RRL17_24265) | 11495..14545 | + | 3051 | WP_004187482 | hypothetical protein | traU |
| RRL17_RS24270 (RRL17_24270) | 14542..15750 | + | 1209 | WP_011091082 | conjugal transfer protein TraW | traW |
| RRL17_RS24275 (RRL17_24275) | 15747..16343 | + | 597 | WP_015060003 | hypothetical protein | - |
| RRL17_RS24280 (RRL17_24280) | 16336..18531 | + | 2196 | WP_015062834 | DotA/TraY family protein | traY |
| RRL17_RS24285 (RRL17_24285) | 18533..19186 | + | 654 | WP_015060005 | hypothetical protein | - |
| RRL17_RS24290 (RRL17_24290) | 19255..19497 | + | 243 | WP_023893611 | IncL/M type plasmid replication protein RepC | - |
| RRL17_RS24295 (RRL17_24295) | 19793..20848 | + | 1056 | WP_015060006 | plasmid replication initiator RepA | - |
| RRL17_RS24300 (RRL17_24300) | 22071..22166 | + | 96 | WP_004206884 | DinQ-like type I toxin DqlB | - |
| RRL17_RS24305 (RRL17_24305) | 22217..24304 | - | 2088 | WP_004206885 | conjugal transfer protein TrbC | - |
| RRL17_RS24310 (RRL17_24310) | 24317..25267 | - | 951 | WP_004206886 | DsbC family protein | trbB |
| RRL17_RS24315 (RRL17_24315) | 25278..26585 | - | 1308 | WP_015059988 | hypothetical protein | trbA |
| RRL17_RS24320 (RRL17_24320) | 26585..26980 | - | 396 | WP_004187436 | lytic transglycosylase domain-containing protein | - |
| RRL17_RS24325 (RRL17_24325) | 27085..27468 | - | 384 | WP_019725042 | DUF1496 domain-containing protein | - |
| RRL17_RS24330 (RRL17_24330) | 27548..27982 | + | 435 | Protein_27 | CPBP family intramembrane glutamate endopeptidase | - |
| RRL17_RS24335 (RRL17_24335) | 27997..29202 | - | 1206 | WP_025987686 | IS4-like element IS10A family transposase | - |
| RRL17_RS24345 (RRL17_24345) | 30115..30912 | + | 798 | WP_015059991 | OXA-48 family carbapenem-hydrolyzing class D beta-lactamase OXA-48 | - |
Host bacterium
| ID | 16445 | GenBank | NZ_CP135496 |
| Plasmid name | pIsolateC_B | Incompatibility group | IncL/M |
| Plasmid size | 61749 bp | Coordinate of oriT [Strand] | 58090..58195 [+] |
| Host baterium | Enterobacter hormaechei strain isolateC |
Cargo genes
| Drug resistance gene | blaOXA-48 |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |