Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 106378 |
| Name | oriT_p4TM-92  |
| Organism | Serratia marcescens strain 4TM |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_CM008880 (2244..2348 [-], 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_p4TM-92
AGTACGGGACAAGATGTGTTTTTGGTACACCGCCGGCACGCCGGCAGTGACGCAAAAACGTCTTGGTCAGGGCAAGCCCCGACACCCCCTAACGAGGTTAGCTAT
AGTACGGGACAAGATGTGTTTTTGGTACACCGCCGGCACGCCGGCAGTGACGCAAAAACGTCTTGGTCAGGGCAAGCCCCGACACCCCCTAACGAGGTTAGCTAT
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 4270 | GenBank | WP_101428087 |
| Name | Relaxase_CS366_RS00725_p4TM-92 |
UniProt ID | _ |
| Length | 659 a.a. | PDB ID | |
| Note | Predicted by oriTfinder 2.0 | ||
Relaxase protein sequence
Download Length: 659 a.a. Molecular weight: 75087.88 Da Isoelectric Point: 10.0563
>WP_101428087.1 TraI/MobA(P) family conjugative relaxase [Serratia marcescens]
MVIPKIIEGRRDKKSSFGQLIKYMADKPSQELTDTVQPTPETALAVKSDMFEGLNNYLTRKQKVISTPVD
VEPGVQRVVVGDVTCQYNTFSLDGAAQEMNSVSQQSTRCKDPVMHYVLSWPDYEKPNDDQVFDSVKFTLA
SMGMSDHQYVAAIHRDTDNLHVHVAVNRINPQTYKAASSSFTKDTLHQACRLLELKNGWSHSNGAYVVND
RQQIVRNPHSKKERGNWRSLDRINKMENKEGVETLYRYIVGDEQVGGSRQNLIHVSAGLREAKSWDDVHK
TFAGIGLRVEKAQGKKGYVITHEHQNQKTAVKASLVFNKAQYTLKSMEERFGEYQPSHIEPAKVSVFKTA
YTPGAYRRDANKRLQRKIERAEERMLLKGRYRAYRNNLPIYSPDKDRIADEYRKIAQHTRLVKNNVRHSV
SDPHTRKLMYNLAEFKRLQAVANLRLSLREERNGFRAANPRLSYREWVEQEALKGDKAALSQMRGFAYSS
RKKEKYKQQLVEQIGFNRTFNAITSHDRDDVAVMASARHGVKPRLLKDGTVIFERDGKPVAADRGHIVLT
ESNGIDKEKTADLAIALTIAGKAKSVRVDGDGEFKELCCNRIVDAAVNHNHPVAQGITFTDAAQQAYAQN
EKHRLIREQNNSKNEMKLRSESDDKFNPK
MVIPKIIEGRRDKKSSFGQLIKYMADKPSQELTDTVQPTPETALAVKSDMFEGLNNYLTRKQKVISTPVD
VEPGVQRVVVGDVTCQYNTFSLDGAAQEMNSVSQQSTRCKDPVMHYVLSWPDYEKPNDDQVFDSVKFTLA
SMGMSDHQYVAAIHRDTDNLHVHVAVNRINPQTYKAASSSFTKDTLHQACRLLELKNGWSHSNGAYVVND
RQQIVRNPHSKKERGNWRSLDRINKMENKEGVETLYRYIVGDEQVGGSRQNLIHVSAGLREAKSWDDVHK
TFAGIGLRVEKAQGKKGYVITHEHQNQKTAVKASLVFNKAQYTLKSMEERFGEYQPSHIEPAKVSVFKTA
YTPGAYRRDANKRLQRKIERAEERMLLKGRYRAYRNNLPIYSPDKDRIADEYRKIAQHTRLVKNNVRHSV
SDPHTRKLMYNLAEFKRLQAVANLRLSLREERNGFRAANPRLSYREWVEQEALKGDKAALSQMRGFAYSS
RKKEKYKQQLVEQIGFNRTFNAITSHDRDDVAVMASARHGVKPRLLKDGTVIFERDGKPVAADRGHIVLT
ESNGIDKEKTADLAIALTIAGKAKSVRVDGDGEFKELCCNRIVDAAVNHNHPVAQGITFTDAAQQAYAQN
EKHRLIREQNNSKNEMKLRSESDDKFNPK
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4CP
| ID | 4291 | GenBank | WP_004206885 |
| Name | t4cp2_CS366_RS00970_p4TM-92 |
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: 59911..80338
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| CS366_RS01105 (CS366_01120) | 55500..56708 | + | 1209 | Protein_78 | Tn3 family transposase | - |
| CS366_RS01110 (CS366_01125) | 57599..58654 | - | 1056 | WP_021526650 | plasmid replication initiator RepA | - |
| CS366_RS01115 (CS366_01130) | 58951..59181 | - | 231 | WP_004187496 | IncL/M type plasmid replication protein RepC | - |
| CS366_RS01120 (CS366_01135) | 59255..59908 | - | 654 | WP_004206935 | hypothetical protein | - |
| CS366_RS26525 (CS366_01140) | 59911..60066 | - | 156 | WP_172448221 | hypothetical protein | traY |
| CS366_RS01130 (CS366_01145) | 60131..61280 | - | 1150 | Protein_83 | IS3 family transposase | - |
| CS366_RS01135 (CS366_01150) | 61325..63325 | - | 2001 | WP_242447813 | DotA/TraY family protein | traY |
| CS366_RS01140 (CS366_01155) | 63318..63968 | - | 651 | WP_060450166 | hypothetical protein | - |
| CS366_RS01145 (CS366_01160) | 63965..65173 | - | 1209 | WP_004187486 | conjugal transfer protein TraW | traW |
| CS366_RS01150 (CS366_01165) | 65170..68220 | - | 3051 | WP_101455461 | conjugal transfer protein | traU |
| CS366_RS01155 (CS366_01170) | 68217..68711 | - | 495 | WP_004187480 | hypothetical protein | - |
| CS366_RS01160 (CS366_01175) | 68757..69146 | - | 390 | WP_011154472 | DUF6750 family protein | traR |
| CS366_RS01165 (CS366_01180) | 69163..69693 | - | 531 | WP_004187478 | conjugal transfer protein TraQ | traQ |
| CS366_RS01170 (CS366_01185) | 69717..70421 | - | 705 | WP_004206933 | conjugal transfer protein TraP | traP |
| CS366_RS01175 (CS366_01190) | 70433..71782 | - | 1350 | WP_004206932 | conjugal transfer protein TraO | traO |
| CS366_RS26840 (CS366_01195) | 71793..72371 | - | 579 | WP_101455462 | DotH/IcmK family type IV secretion protein | traN |
| CS366_RS27035 (CS366_01200) | 72346..72942 | - | 597 | WP_101455463 | DotH/IcmK family type IV secretion protein | traN |
| CS366_RS01190 (CS366_01205) | 72951..73664 | - | 714 | WP_223294958 | DotI/IcmL family type IV secretion protein | traM |
| CS366_RS01195 (CS366_01210) | 73732..74142 | + | 411 | WP_004187465 | H-NS family nucleoid-associated regulatory protein | - |
| CS366_RS01200 (CS366_01215) | 74171..74326 | + | 156 | WP_172693602 | Hha/YmoA family nucleoid-associated regulatory protein | - |
| CS366_RS26310 (CS366_01220) | 74327..74839 | - | 513 | WP_011091071 | hypothetical protein | traL |
| CS366_RS26845 | 74805..78110 | - | 3306 | WP_227549828 | LPD7 domain-containing protein | - |
| CS366_RS01210 (CS366_01230) | 78135..78395 | - | 261 | WP_004187310 | IcmT/TraK family protein | traK |
| CS366_RS01215 (CS366_01235) | 78385..79548 | - | 1164 | WP_004206926 | plasmid transfer ATPase TraJ | virB11 |
| CS366_RS01220 (CS366_01240) | 79559..80338 | - | 780 | WP_004187315 | type IV secretory system conjugative DNA transfer family protein | traI |
| CS366_RS27120 (CS366_01245) | 80335..80833 | - | 499 | Protein_103 | DotD/TraH family lipoprotein | - |
Host bacterium
| ID | 6815 | GenBank | NZ_CM008880 |
| Plasmid name | p4TM-92 | Incompatibility group | ColRNAI |
| Plasmid size | 80889 bp | Coordinate of oriT [Strand] | 2244..2348 [-] |
| Host baterium | Serratia marcescens strain 4TM |
Cargo genes
| Drug resistance gene | aph(6)-Id, dfrA14, sul2, blaCTX-M-15, aac(3)-IIa, aac(6')-Ib-cr, blaOXA-1 |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |