Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 101467 |
| Name | oriT_pRHBSTW-00671_6  |
| Organism | Citrobacter sp. RHBSTW-00671 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_JABXPR010000006 (47345..47449 [+], 105 nt) |
| oriT length | 105 nt |
| IRs (inverted repeats) | 32..37, 40..45 (GCCGGC..GCCGGC) |
| Location of nic site | _ |
| Conserved sequence flanking the nic site |
_ |
| Note | Predicted by oriTfinder 2.0 |
oriT sequence
Download Length: 105 nt
>oriT_pRHBSTW-00671_6
AGTACGGGACAAGATGTGTTTTTGGTACACCGCCGGCACGCCGGCAGTGACGCAAAAACGTCTTGGTCAGGGCAAGCCCCGACACCCCCTAACGAGGTTAGCTAT
AGTACGGGACAAGATGTGTTTTTGGTACACCGCCGGCACGCCGGCAGTGACGCAAAAACGTCTTGGTCAGGGCAAGCCCCGACACCCCCTAACGAGGTTAGCTAT
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 1321 | GenBank | WP_004206924 |
| Name | traI_HV261_RS27000_pRHBSTW-00671_6 |
UniProt ID | A0A2V4FJ40 |
| Length | 659 a.a. | PDB ID | |
| Note | Predicted by oriTfinder 2.0 | ||
Relaxase protein sequence
Download Length: 659 a.a. Molecular weight: 75087.84 Da Isoelectric Point: 10.0285
>WP_004206924.1 MULTISPECIES: TraI/MobA(P) family conjugative relaxase [Enterobacterales]
MVIPKIIEGRRDKKSSFGQLIKYMADKPSQELTDTVQPTPETALAVKSDMFEGLNNYLTRKQKVISTPVD
VEPGVQRVVVGDVTCQYNTFSLDGAAQEMNSVSQQSTRCKDPVMHYVLSWPDYEKPNDDQVFDSVKFTLA
SMGMSDHQYVAAIHRDTDNLHVHVAVNRINPQTYKAASSSFTKDTLHQACRLLELKNGWSHSNGAYVVND
RQQIVRNPHSKKERGNWRSLDRINKMENKEGVETLYRYIVGDEQVGGSRQNLIHVSAGLREAKSWDDVHK
TFAGIGLRVEKAQGKKGYVITHEHQNQKTAVKASLVFNKAQYTLKSMEERFGEYQPSHIEPAKVSVFKTA
YTPGAYRRDANKRLQRKIERAEERMLLKGRYRAYRNNLPIYSPDKDRIADEYRKIAQHTRLVKNNVRHSV
SDPHTRKLMYNLAEFKRLQAVANLRLSLREERNGFRAANPRLSYREWVEQEALKGDKAALSQMRGFAYSS
RKKEKYKQQLVEQIGFNRTFNAITSHDRDDVAVMASARHGVKPRLLKDGTVIFERDGKPVAADRGHIVLT
ESNGIDKEKTADLAIALTIAGKAKSVRVDGDGEFKELCCNRIVDAAVNHNHPVAQGITFTDAAQQAYAQN
EKHRLIREQNNSKNEMQLRSESDDKFNPK
MVIPKIIEGRRDKKSSFGQLIKYMADKPSQELTDTVQPTPETALAVKSDMFEGLNNYLTRKQKVISTPVD
VEPGVQRVVVGDVTCQYNTFSLDGAAQEMNSVSQQSTRCKDPVMHYVLSWPDYEKPNDDQVFDSVKFTLA
SMGMSDHQYVAAIHRDTDNLHVHVAVNRINPQTYKAASSSFTKDTLHQACRLLELKNGWSHSNGAYVVND
RQQIVRNPHSKKERGNWRSLDRINKMENKEGVETLYRYIVGDEQVGGSRQNLIHVSAGLREAKSWDDVHK
TFAGIGLRVEKAQGKKGYVITHEHQNQKTAVKASLVFNKAQYTLKSMEERFGEYQPSHIEPAKVSVFKTA
YTPGAYRRDANKRLQRKIERAEERMLLKGRYRAYRNNLPIYSPDKDRIADEYRKIAQHTRLVKNNVRHSV
SDPHTRKLMYNLAEFKRLQAVANLRLSLREERNGFRAANPRLSYREWVEQEALKGDKAALSQMRGFAYSS
RKKEKYKQQLVEQIGFNRTFNAITSHDRDDVAVMASARHGVKPRLLKDGTVIFERDGKPVAADRGHIVLT
ESNGIDKEKTADLAIALTIAGKAKSVRVDGDGEFKELCCNRIVDAAVNHNHPVAQGITFTDAAQQAYAQN
EKHRLIREQNNSKNEMQLRSESDDKFNPK
Protein domains
Predicted by InterproScan.
Protein structure
| Source | ID | Structure |
|---|---|---|
| AlphaFold DB | A0A2V4FJ40 |
T4CP
| ID | 938 | GenBank | WP_004206885 |
| Name | t4cp2_HV261_RS26665_pRHBSTW-00671_6 |
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: 50247..69443
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| HV261_RS26980 (HV261_26965) | 45330..45641 | + | 312 | WP_004187333 | hypothetical protein | - |
| HV261_RS26985 (HV261_26970) | 45774..46310 | + | 537 | WP_004187332 | hypothetical protein | - |
| HV261_RS26990 (HV261_26975) | 46812..47207 | - | 396 | WP_019725163 | hypothetical protein | - |
| HV261_RS26995 (HV261_26980) | 47453..47770 | + | 318 | WP_004206923 | plasmid mobilization protein MobA | - |
| HV261_RS27000 (HV261_26985) | 47757..49736 | + | 1980 | WP_004206924 | TraI/MobA(P) family conjugative relaxase | - |
| HV261_RS27005 (HV261_26990) | 49750..50250 | + | 501 | WP_004206925 | DotD/TraH family lipoprotein | - |
| HV261_RS27010 (HV261_26995) | 50247..51026 | + | 780 | WP_004187315 | type IV secretory system conjugative DNA transfer family protein | traI |
| HV261_RS27015 (HV261_27000) | 51037..52200 | + | 1164 | WP_004206926 | plasmid transfer ATPase TraJ | virB11 |
| HV261_RS27020 (HV261_27005) | 52190..52450 | + | 261 | WP_004187310 | IcmT/TraK family protein | traK |
| HV261_RS27875 | 52475..55780 | + | 3306 | WP_277205677 | LPD7 domain-containing protein | - |
| HV261_RS27030 (HV261_27015) | 55746..56258 | + | 513 | WP_277205676 | hypothetical protein | traL |
| HV261_RS27035 (HV261_27020) | 56259..56471 | - | 213 | WP_305953721 | Hha/YmoA family nucleoid-associated regulatory protein | - |
| HV261_RS27040 (HV261_27025) | 56443..56853 | - | 411 | WP_004187465 | H-NS family nucleoid-associated regulatory protein | - |
| HV261_RS27045 (HV261_27030) | 56864..57634 | + | 771 | WP_326929184 | DotI/IcmL family type IV secretion protein | traM |
| HV261_RS27050 (HV261_27035) | 57643..58794 | + | 1152 | WP_015062843 | DotH/IcmK family type IV secretion protein | traN |
| HV261_RS27055 (HV261_27040) | 58806..60155 | + | 1350 | WP_004206932 | conjugal transfer protein TraO | traO |
| HV261_RS27060 (HV261_27045) | 60167..60871 | + | 705 | WP_043876214 | conjugal transfer protein TraP | traP |
| HV261_RS27065 (HV261_27050) | 60895..61425 | + | 531 | WP_004187478 | conjugal transfer protein TraQ | traQ |
| HV261_RS27070 (HV261_27055) | 61442..61831 | + | 390 | WP_004187479 | DUF6750 family protein | traR |
| HV261_RS27075 (HV261_27060) | 61877..62371 | + | 495 | WP_004187480 | hypothetical protein | - |
| HV261_RS27080 (HV261_27065) | 62368..65418 | + | 3051 | WP_043876212 | conjugal transfer protein | traU |
| HV261_RS27085 (HV261_27070) | 65415..66623 | + | 1209 | WP_202039886 | conjugal transfer protein TraW | traW |
| HV261_RS27090 (HV261_27075) | 66620..67270 | + | 651 | WP_004187488 | hypothetical protein | - |
| HV261_RS27095 (HV261_27080) | 67263..69443 | + | 2181 | WP_004187492 | DotA/TraY family protein | traY |
| HV261_RS27100 (HV261_27085) | 69446..70099 | + | 654 | WP_004206935 | hypothetical protein | - |
| HV261_RS27105 (HV261_27090) | 70173..70400 | + | 228 | WP_202039887 | IncL/M type plasmid replication protein RepC | - |
Host bacterium
| ID | 1911 | GenBank | NZ_JABXPR010000006 |
| Plasmid name | pRHBSTW-00671_6 | Incompatibility group | IncL/M |
| Plasmid size | 70699 bp | Coordinate of oriT [Strand] | 47345..47449 [+] |
| Host baterium | Citrobacter sp. RHBSTW-00671 |
Cargo genes
| Drug resistance gene | - |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |