Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 120962 |
| Name | oriT_pCAV1761-73  |
| Organism | Serratia marcescens strain CAV1761 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_CP029447 (1864..1968 [-], 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_pCAV1761-73
AGTACGGGACAAGATGTGTTTTTGGTACACCGCCGGCACGCCGGCAGTGACGCAAAAACGTCTTGGTCAGGGCAAGCCCCGACACCCCCTAACGAGGTTAGCTAT
AGTACGGGACAAGATGTGTTTTTGGTACACCGCCGGCACGCCGGCAGTGACGCAAAAACGTCTTGGTCAGGGCAAGCCCCGACACCCCCTAACGAGGTTAGCTAT
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 13230 | GenBank | WP_004206924 |
| Name | traI_DKC05_RS00440_pCAV1761-73 |
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 | 15509 | GenBank | WP_004206885 |
| Name | t4cp2_DKC05_RS00690_pCAV1761-73 |
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: 52970..72166
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| DKC05_RS00780 (DKC05_00845) | 48482..49486 | + | 1005 | WP_000427623 | IS110-like element IS4321 family transposase | - |
| DKC05_RS00785 (DKC05_00850) | 50658..51713 | - | 1056 | WP_015062846 | plasmid replication initiator RepA | - |
| DKC05_RS00790 (DKC05_00855) | 52010..52240 | - | 231 | WP_004187496 | IncL/M type plasmid replication protein RepC | - |
| DKC05_RS00795 (DKC05_00860) | 52314..52967 | - | 654 | WP_004206935 | hypothetical protein | - |
| DKC05_RS00800 (DKC05_00865) | 52970..55150 | - | 2181 | WP_004187492 | DotA/TraY family protein | traY |
| DKC05_RS00805 (DKC05_00870) | 55143..55793 | - | 651 | WP_004187488 | hypothetical protein | - |
| DKC05_RS00810 (DKC05_00875) | 55790..56998 | - | 1209 | WP_004187486 | conjugal transfer protein TraW | traW |
| DKC05_RS00815 (DKC05_00880) | 56995..60045 | - | 3051 | WP_011154474 | conjugative transfer protein | traU |
| DKC05_RS00820 (DKC05_00885) | 60042..60536 | - | 495 | WP_004187480 | hypothetical protein | - |
| DKC05_RS00825 (DKC05_00890) | 60582..60971 | - | 390 | WP_011154472 | DUF6750 family protein | traR |
| DKC05_RS00830 (DKC05_00895) | 60988..61518 | - | 531 | WP_004187478 | conjugal transfer protein TraQ | traQ |
| DKC05_RS00835 (DKC05_00900) | 61542..62246 | - | 705 | WP_004206933 | conjugal transfer protein TraP | traP |
| DKC05_RS00840 (DKC05_00905) | 62258..63607 | - | 1350 | WP_004206932 | conjugal transfer protein TraO | traO |
| DKC05_RS00845 (DKC05_00910) | 63619..64770 | - | 1152 | WP_015062843 | DotH/IcmK family type IV secretion protein | traN |
| DKC05_RS00850 (DKC05_00915) | 64779..65492 | - | 714 | WP_223294958 | DotI/IcmL family type IV secretion protein | traM |
| DKC05_RS00855 (DKC05_00920) | 65560..65970 | + | 411 | WP_004187465 | H-NS family nucleoid-associated regulatory protein | - |
| DKC05_RS00860 (DKC05_00925) | 65999..66154 | + | 156 | WP_172693602 | Hha/YmoA family nucleoid-associated regulatory protein | - |
| DKC05_RS00865 | 66155..66667 | - | 513 | WP_011091071 | hypothetical protein | traL |
| DKC05_RS28720 | 66633..69938 | - | 3306 | WP_219818010 | LPD7 domain-containing protein | - |
| DKC05_RS00875 (DKC05_00935) | 69963..70223 | - | 261 | WP_004187310 | IcmT/TraK family protein | traK |
| DKC05_RS00880 (DKC05_00940) | 70213..71376 | - | 1164 | WP_004206926 | plasmid transfer ATPase TraJ | virB11 |
| DKC05_RS00885 (DKC05_00945) | 71387..72166 | - | 780 | WP_004187315 | type IV secretory system conjugative DNA transfer family protein | traI |
| DKC05_RS00890 (DKC05_00950) | 72163..72663 | - | 501 | WP_004206925 | DotD/TraH family lipoprotein | - |
Host bacterium
| ID | 21391 | GenBank | NZ_CP029447 |
| Plasmid name | pCAV1761-73 | Incompatibility group | IncL/M |
| Plasmid size | 73100 bp | Coordinate of oriT [Strand] | 1864..1968 [-] |
| Host baterium | Serratia marcescens strain CAV1761 |
Cargo genes
| Drug resistance gene | blaSHV-30 |
| Virulence gene | - |
| Metal resistance gene | merR, merT, merP, merC, merA, merD, merE |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |