Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 111190 |
| Name | oriT_S. marcescens 0|P1  |
| Organism | Serratia marcescens isolate 0 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_OW967879 (42048..42153 [+], 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_S. marcescens 0|P1
AGTACGGGACAAGATGTGTTTTTGGAGTACCGCCGACACGCGGCGGCCGTCCAAAAACGTCTTGGTCAGGGCAAGCCCCGACACCCCCTAACGAGGTTAGCTATCT
AGTACGGGACAAGATGTGTTTTTGGAGTACCGCCGACACGCGGCGGCCGTCCAAAAACGTCTTGGTCAGGGCAAGCCCCGACACCCCCTAACGAGGTTAGCTATCT
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 7326 | GenBank | WP_004187323 |
| Name | traI_LQ139_RS25035_S. marcescens 0|P1 |
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 | 8350 | GenBank | WP_004206885 |
| Name | t4cp2_LQ139_RS24735_S. marcescens 0|P1 |
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: 44949..64238
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| LQ139_RS25015 (AI2887V1_4807) | 40033..40344 | + | 312 | WP_004187333 | hypothetical protein | - |
| LQ139_RS25020 (AI2887V1_4808) | 40477..41013 | + | 537 | WP_004187332 | hypothetical protein | - |
| LQ139_RS25025 (AI2887V1_4809) | 41515..41910 | - | 396 | WP_019725163 | hypothetical protein | - |
| LQ139_RS25030 (AI2887V1_4810) | 41945..42472 | + | 528 | WP_172740549 | plasmid mobilization protein MobA | - |
| LQ139_RS25035 (AI2887V1_4811) | 42459..44438 | + | 1980 | WP_004187323 | TraI/MobA(P) family conjugative relaxase | - |
| LQ139_RS25040 (AI2887V1_4812) | 44452..44952 | + | 501 | WP_004187320 | DotD/TraH family lipoprotein | - |
| LQ139_RS25045 (AI2887V1_4813) | 44949..45728 | + | 780 | WP_004187315 | type IV secretory system conjugative DNA transfer family protein | traI |
| LQ139_RS25050 (AI2887V1_4814) | 45739..46902 | + | 1164 | WP_004187313 | plasmid transfer ATPase TraJ | virB11 |
| LQ139_RS25055 (AI2887V1_4815) | 46892..47152 | + | 261 | WP_004187310 | IcmT/TraK family protein | traK |
| LQ139_RS25060 (AI2887V1_4816) | 47177..50614 | + | 3438 | WP_015586048 | LPD7 domain-containing protein | - |
| LQ139_RS25065 (AI2887V1_4817) | 50580..51092 | + | 513 | WP_011091071 | hypothetical protein | traL |
| LQ139_RS25070 | 51093..51305 | - | 213 | WP_305953721 | Hha/YmoA family nucleoid-associated regulatory protein | - |
| LQ139_RS25075 | 51277..51687 | - | 411 | WP_004187465 | H-NS family nucleoid-associated regulatory protein | - |
| LQ139_RS25080 | 51755..52468 | + | 714 | WP_004187467 | DotI/IcmL family type IV secretion protein | traM |
| LQ139_RS25085 (AI2887V1_4820) | 52477..53628 | + | 1152 | WP_004187471 | DotH/IcmK family type IV secretion protein | traN |
| LQ139_RS25090 (AI2887V1_4821) | 53640..54989 | + | 1350 | WP_004187474 | conjugal transfer protein TraO | traO |
| LQ139_RS25095 (AI2887V1_4822) | 55001..55705 | + | 705 | WP_015060002 | conjugal transfer protein TraP | traP |
| LQ139_RS25100 (AI2887V1_4823) | 55729..56259 | + | 531 | WP_004187478 | conjugal transfer protein TraQ | traQ |
| LQ139_RS25105 (AI2887V1_4824) | 56276..56665 | + | 390 | WP_004187479 | DUF6750 family protein | traR |
| LQ139_RS25110 (AI2887V1_4825) | 56711..57205 | + | 495 | WP_004187480 | hypothetical protein | - |
| LQ139_RS25115 (AI2887V1_4826) | 57202..60252 | + | 3051 | WP_004187482 | hypothetical protein | traU |
| LQ139_RS25120 (AI2887V1_4827) | 60249..61457 | + | 1209 | WP_011091082 | conjugal transfer protein TraW | traW |
| LQ139_RS25125 (AI2887V1_4828) | 61454..62050 | + | 597 | WP_015060003 | hypothetical protein | - |
| LQ139_RS25130 (AI2887V1_4829) | 62043..64238 | + | 2196 | WP_015062834 | DotA/TraY family protein | traY |
| LQ139_RS25135 (AI2887V1_4830) | 64240..64893 | + | 654 | WP_015060005 | hypothetical protein | - |
| LQ139_RS25140 (AI2887V1_4831) | 64974..65204 | + | 231 | WP_011091085 | IncL/M type plasmid replication protein RepC | - |
Host bacterium
| ID | 11625 | GenBank | NZ_OW967879 |
| Plasmid name | S. marcescens 0|P1 | Incompatibility group | IncL/M |
| Plasmid size | 65499 bp | Coordinate of oriT [Strand] | 42048..42153 [+] |
| Host baterium | Serratia marcescens isolate 0 |
Cargo genes
| Drug resistance gene | blaOXA-48 |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |