Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 109998 |
| Name | oriT_p2017-45-174_2  |
| Organism | Serratia nevei strain 2017-45-174 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_CP109742 (31543..31647 [+], 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_p2017-45-174_2
AGTACGGGACAAGATGTGTTTTTGGTACACCGCCGGCACGCCGGCAGTGACGCAAAAACGTCTTGGTCAGGGCAAGCCCCGACACCCCCTAACGAGGTTAGCTAT
AGTACGGGACAAGATGTGTTTTTGGTACACCGCCGGCACGCCGGCAGTGACGCAAAAACGTCTTGGTCAGGGCAAGCCCCGACACCCCCTAACGAGGTTAGCTAT
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 6600 | GenBank | WP_004206924 |
| Name | Relaxase_OI978_RS28630_p2017-45-174_2 |
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 | 7290 | GenBank | WP_004206885 |
| Name | t4cp2_OI978_RS28380_p2017-45-174_2 |
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: 34445..53641
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| OI978_RS28610 (OI978_28625) | 29529..29840 | + | 312 | WP_004187333 | hypothetical protein | - |
| OI978_RS28615 (OI978_28630) | 29973..30509 | + | 537 | WP_004206920 | hypothetical protein | - |
| OI978_RS28620 (OI978_28635) | 31010..31375 | - | 366 | WP_004206922 | hypothetical protein | - |
| OI978_RS28625 (OI978_28640) | 31651..31968 | + | 318 | WP_004206923 | plasmid mobilization protein MobA | - |
| OI978_RS28630 (OI978_28645) | 31955..33934 | + | 1980 | WP_004206924 | TraI/MobA(P) family conjugative relaxase | - |
| OI978_RS28635 (OI978_28650) | 33948..34448 | + | 501 | WP_004206925 | DotD/TraH family lipoprotein | - |
| OI978_RS28640 (OI978_28655) | 34445..35224 | + | 780 | WP_004187315 | type IV secretory system conjugative DNA transfer family protein | traI |
| OI978_RS28645 (OI978_28660) | 35235..36398 | + | 1164 | WP_004206926 | plasmid transfer ATPase TraJ | virB11 |
| OI978_RS28650 (OI978_28665) | 36388..36648 | + | 261 | WP_004187310 | IcmT/TraK family protein | traK |
| OI978_RS28655 (OI978_28670) | 36673..39978 | + | 3306 | WP_219818010 | LPD7 domain-containing protein | - |
| OI978_RS28660 (OI978_28675) | 39944..40456 | + | 513 | WP_011091071 | hypothetical protein | traL |
| OI978_RS28665 (OI978_28680) | 40457..40669 | - | 213 | WP_305953721 | Hha/YmoA family nucleoid-associated regulatory protein | - |
| OI978_RS28670 (OI978_28685) | 40641..41051 | - | 411 | WP_004187465 | H-NS family nucleoid-associated regulatory protein | - |
| OI978_RS28675 (OI978_28690) | 41119..41832 | + | 714 | WP_223294958 | DotI/IcmL family type IV secretion protein | traM |
| OI978_RS28680 (OI978_28695) | 41841..42992 | + | 1152 | WP_015062843 | DotH/IcmK family type IV secretion protein | traN |
| OI978_RS28685 (OI978_28700) | 43004..44353 | + | 1350 | WP_004206932 | conjugal transfer protein TraO | traO |
| OI978_RS28690 (OI978_28705) | 44365..45069 | + | 705 | WP_004206933 | conjugal transfer protein TraP | traP |
| OI978_RS28695 (OI978_28710) | 45093..45623 | + | 531 | WP_004187478 | conjugal transfer protein TraQ | traQ |
| OI978_RS28700 (OI978_28715) | 45640..46029 | + | 390 | WP_011154472 | DUF6750 family protein | traR |
| OI978_RS28705 (OI978_28720) | 46075..46569 | + | 495 | WP_004187480 | hypothetical protein | - |
| OI978_RS28710 (OI978_28725) | 46566..49616 | + | 3051 | WP_011154474 | conjugative transfer protein | traU |
| OI978_RS28715 (OI978_28730) | 49613..50821 | + | 1209 | WP_004187486 | conjugal transfer protein TraW | traW |
| OI978_RS28720 (OI978_28735) | 50818..51468 | + | 651 | WP_284598569 | TraX-like protein | - |
| OI978_RS28725 (OI978_28740) | 51461..53641 | + | 2181 | WP_004187492 | DotA/TraY family protein | traY |
| OI978_RS28730 (OI978_28745) | 53644..54297 | + | 654 | WP_004206935 | hypothetical protein | - |
| OI978_RS28735 (OI978_28750) | 54371..54601 | + | 231 | WP_004187496 | IncL/M type plasmid replication protein RepC | - |
| OI978_RS28740 (OI978_28755) | 54898..55953 | + | 1056 | WP_015062846 | plasmid replication initiator RepA | - |
Host bacterium
| ID | 10433 | GenBank | NZ_CP109742 |
| Plasmid name | p2017-45-174_2 | Incompatibility group | IncL/M |
| Plasmid size | 59632 bp | Coordinate of oriT [Strand] | 31543..31647 [+] |
| Host baterium | Serratia nevei strain 2017-45-174 |
Cargo genes
| Drug resistance gene | - |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |