Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 113242 |
| Name | oriT_pRM052_1  |
| Organism | Salmonella enterica subsp. enterica serovar Dublin strain RM052 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_CP117337 (3397..4003 [-], 607 nt) |
| oriT length | 607 nt |
| IRs (inverted repeats) | 590..595, 600..605 (ATGCCC..GGGCAT) 517..523, 529..535 (CCTCCCG..CGGGAGG) 453..458, 462..467 (GTTCGC..GCGAAC) 196..202, 204..210 (TCAATTC..GAATTGA) 175..180, 187..192 (AAATCA..TGATTT) 78..84, 93..99 (TGCTTTA..TAAAGCA) 29..37, 46..54 (TTTTGATAA..TTATCAAAA) |
| Location of nic site | 313..314 |
| Conserved sequence flanking the nic site |
TCCTGCATCG |
| Note | Predicted by oriTfinder 2.0 |
oriT sequence
Download Length: 607 nt
>oriT_pRM052_1
CTTTGTTTACCTGTTAAGTACATCGTTGTTTTGATAAAATCATTATTATCAAAAAACGTATTCATATCCTTACTGCCTGCTTTACTTTTTAATAAAGCATTTGCTAAAAGTTTCATGCCTTCAGCTACTGTTAAAGCTGGTTCATCTGGATAAAGAGTTTTAAGGCAATCCAGCAAATCATCATGCTGATTTTCATCAATTCTGAATTGAACTTTTTTCATAAAATTCTCCGACAAGAACCGACTGTAGGTCACCGGGCAAACGTTGCGGAATGGCGCAAGAGACGTCATTTTGCGGCGTTTGCCCTATCCTGCATCGCAGTGAATCTGGCACCGCTCATAAATTGTGCTTGAGCATCAACAAAAATGCAAAAAGGCTGATGTTGTCATGGCTGAACATACGTACGTCTGCGACCGGAAACCCGATCAATGCGGTAAGGACAGTGCCGTCAGGTTCGCTCCGCGAACGGTCTGGCAGGAAGCGCAAGCGCAGTCCCGCGCAATATATCAGAAAGCACCTCCCGAAATACGGGAGGGCTTCGGCTATTCAGCTAAGGTTGCTCTGTTCAGGTTGCTGAGTGTAGCCTTCCATGCCCTGACGGGCATCA
CTTTGTTTACCTGTTAAGTACATCGTTGTTTTGATAAAATCATTATTATCAAAAAACGTATTCATATCCTTACTGCCTGCTTTACTTTTTAATAAAGCATTTGCTAAAAGTTTCATGCCTTCAGCTACTGTTAAAGCTGGTTCATCTGGATAAAGAGTTTTAAGGCAATCCAGCAAATCATCATGCTGATTTTCATCAATTCTGAATTGAACTTTTTTCATAAAATTCTCCGACAAGAACCGACTGTAGGTCACCGGGCAAACGTTGCGGAATGGCGCAAGAGACGTCATTTTGCGGCGTTTGCCCTATCCTGCATCGCAGTGAATCTGGCACCGCTCATAAATTGTGCTTGAGCATCAACAAAAATGCAAAAAGGCTGATGTTGTCATGGCTGAACATACGTACGTCTGCGACCGGAAACCCGATCAATGCGGTAAGGACAGTGCCGTCAGGTTCGCTCCGCGAACGGTCTGGCAGGAAGCGCAAGCGCAGTCCCGCGCAATATATCAGAAAGCACCTCCCGAAATACGGGAGGGCTTCGGCTATTCAGCTAAGGTTGCTCTGTTCAGGTTGCTGAGTGTAGCCTTCCATGCCCTGACGGGCATCA
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 8496 | GenBank | WP_000539536 |
| Name | mobP1_PQP91_RS23780_pRM052_1 |
UniProt ID | B1MUA5 |
| Length | 393 a.a. | PDB ID | |
| Note | Predicted by oriTfinder 2.0 | ||
Relaxase protein sequence
Download Length: 393 a.a. Molecular weight: 45040.56 Da Isoelectric Point: 10.5343
>WP_000539536.1 MULTISPECIES: MobP1 family relaxase [Salmonella]
MGVYVDKEYRVKRKSSENGRKSAFAHKVKNGGKNYSRNVQERINRKGASKEVVVKISGGAVTRQGIRNSI
DYMSRESELPVMSESGRVWTGAEILEAKEHMIDRANDPQHVMNDKGKENKKITQNIVFSPPVLAKVKPED
LLESVRKTMQKKYPNHRFVLGYHCDKKEHPHVHVVFRIRDNDGKRADIRKKDLREIRTGFCEELKLKGYD
VKATHKQQHGLNQSVKDAHNTAPKRQKGVYEVVDVGYDHYQNDKTKSKQHFIKLKTLNKGVEKTYWGADF
GDLCSRESVKAGDLVRLKKLGQKEVKIPALDKNGVQHGWKTVHRNEWQLENLGVKGVDRTPSASKELVLN
SPDMLLKQQQRMAQFTQQKASTLQSEQKLKTGIKFWGFGAYKI
MGVYVDKEYRVKRKSSENGRKSAFAHKVKNGGKNYSRNVQERINRKGASKEVVVKISGGAVTRQGIRNSI
DYMSRESELPVMSESGRVWTGAEILEAKEHMIDRANDPQHVMNDKGKENKKITQNIVFSPPVLAKVKPED
LLESVRKTMQKKYPNHRFVLGYHCDKKEHPHVHVVFRIRDNDGKRADIRKKDLREIRTGFCEELKLKGYD
VKATHKQQHGLNQSVKDAHNTAPKRQKGVYEVVDVGYDHYQNDKTKSKQHFIKLKTLNKGVEKTYWGADF
GDLCSRESVKAGDLVRLKKLGQKEVKIPALDKNGVQHGWKTVHRNEWQLENLGVKGVDRTPSASKELVLN
SPDMLLKQQQRMAQFTQQKASTLQSEQKLKTGIKFWGFGAYKI
Protein domains
Predicted by InterproScan.
Protein structure
| Source | ID | Structure |
|---|---|---|
| AlphaFold DB | B1MUA5 |
T4CP
| ID | 9803 | GenBank | WP_000053823 |
| Name | t4cp2_PQP91_RS23850_pRM052_1 |
UniProt ID | _ |
| Length | 611 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 611 a.a. Molecular weight: 69454.30 Da Isoelectric Point: 6.6272
>WP_000053823.1 MULTISPECIES: type IV secretory system conjugative DNA transfer family protein [Salmonella]
MSLKLPDKGQWAFIGLVMCLVTYYTGSVAVYFLNGKTPLYIWKNFDSMLLWRIITESNIRTDIRLTAIPS
LLSGMVSSLIVPVFIIWQLNKTDVALYGDAKFASDNDLRKSKLLKWEKENDTDILVGVYKGKYLWYTAPD
FVSLGAGTRAGKGAAIGIPNLLVRKHSLIALDPKQELWKITSKVREILLGNKVYLLDPFNSKTHQFNPLF
YIDLKAESGAKDLLKLIEILFPSYGMTGAEAYFNNLAGQYWTGLAKLLHFFINYEPPWLNEFGLKPVFSI
GSVVDLYSNIDRELILSKREELEGTNGLDENALYHLRDALTKIREYHETEDEQRSSIDGSFRKKMSLFYL
PTVRKCTDGNDFDLRQLRREDITVYVGVNAEDISLAYDFLNLFFNFVVEVTLRENPDFDPTLKHDCLMFL
DEFPSIGYMPIIKKGSGYIAGFKLKLLTIYQNISQLNEIYGIEGAKTLMSAHPCRIIYAVSEEDDAAKIS
EKLGYITTTSKSTSKSRGRSTSQGESESEARRALVLPQELGTLDFKEEFIILKGENPVKAEKALYYLDPY
FMDRLMKVSPKLASLTMELNKTEKIFGVKGLKYPSKEKMLSVGELESEVLL
MSLKLPDKGQWAFIGLVMCLVTYYTGSVAVYFLNGKTPLYIWKNFDSMLLWRIITESNIRTDIRLTAIPS
LLSGMVSSLIVPVFIIWQLNKTDVALYGDAKFASDNDLRKSKLLKWEKENDTDILVGVYKGKYLWYTAPD
FVSLGAGTRAGKGAAIGIPNLLVRKHSLIALDPKQELWKITSKVREILLGNKVYLLDPFNSKTHQFNPLF
YIDLKAESGAKDLLKLIEILFPSYGMTGAEAYFNNLAGQYWTGLAKLLHFFINYEPPWLNEFGLKPVFSI
GSVVDLYSNIDRELILSKREELEGTNGLDENALYHLRDALTKIREYHETEDEQRSSIDGSFRKKMSLFYL
PTVRKCTDGNDFDLRQLRREDITVYVGVNAEDISLAYDFLNLFFNFVVEVTLRENPDFDPTLKHDCLMFL
DEFPSIGYMPIIKKGSGYIAGFKLKLLTIYQNISQLNEIYGIEGAKTLMSAHPCRIIYAVSEEDDAAKIS
EKLGYITTTSKSTSKSRGRSTSQGESESEARRALVLPQELGTLDFKEEFIILKGENPVKAEKALYYLDPY
FMDRLMKVSPKLASLTMELNKTEKIFGVKGLKYPSKEKMLSVGELESEVLL
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 6551..15478
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| PQP91_RS23745 (PQP91_23745) | 1859..2104 | + | 246 | WP_000356542 | hypothetical protein | - |
| PQP91_RS23750 (PQP91_23750) | 2094..2309 | + | 216 | WP_001180117 | hypothetical protein | - |
| PQP91_RS23755 (PQP91_23755) | 2402..2731 | + | 330 | WP_000866650 | hypothetical protein | - |
| PQP91_RS23760 (PQP91_23760) | 2774..2953 | + | 180 | WP_001575529 | hypothetical protein | - |
| PQP91_RS23765 (PQP91_23765) | 2975..3172 | + | 198 | WP_001675595 | hypothetical protein | - |
| PQP91_RS23770 (PQP91_23770) | 3185..3457 | + | 273 | WP_000160399 | hypothetical protein | - |
| PQP91_RS23775 (PQP91_23775) | 3783..4328 | + | 546 | WP_000757691 | DNA distortion polypeptide 1 | - |
| PQP91_RS23780 (PQP91_23780) | 4331..5512 | + | 1182 | WP_000539536 | MobP1 family relaxase | - |
| PQP91_RS23785 (PQP91_23785) | 5858..6376 | + | 519 | WP_001675951 | transcription termination/antitermination NusG family protein | - |
| PQP91_RS23790 (PQP91_23790) | 6306..6518 | + | 213 | WP_000125172 | hypothetical protein | - |
| PQP91_RS23795 (PQP91_23795) | 6551..7198 | + | 648 | WP_000953526 | lytic transglycosylase domain-containing protein | virB1 |
| PQP91_RS23800 (PQP91_23800) | 7176..7472 | + | 297 | WP_000916182 | TrbC/VirB2 family protein | virB2 |
| PQP91_RS23805 (PQP91_23805) | 7491..10244 | + | 2754 | WP_001675613 | VirB3 family type IV secretion system protein | virb4 |
| PQP91_RS23810 (PQP91_23810) | 10255..11013 | + | 759 | WP_000744198 | type IV secretion system protein | - |
| PQP91_RS23815 (PQP91_23815) | 11014..11241 | + | 228 | WP_000835348 | EexN family lipoprotein | - |
| PQP91_RS23820 (PQP91_23820) | 11251..12384 | + | 1134 | WP_000513456 | type IV secretion system protein | virB6 |
| PQP91_RS23830 (PQP91_23830) | 12629..13342 | + | 714 | WP_000394613 | type IV secretion system protein | virB8 |
| PQP91_RS23835 (PQP91_23835) | 13347..14276 | + | 930 | WP_000783377 | TrbG/VirB9 family P-type conjugative transfer protein | virB9 |
| PQP91_RS23840 (PQP91_23840) | 14273..15478 | + | 1206 | WP_000139139 | VirB10/TraB/TrbI family type IV secretion system protein | virB10 |
| PQP91_RS23845 (PQP91_23845) | 15480..16510 | + | 1031 | Protein_22 | P-type DNA transfer ATPase VirB11 | - |
| PQP91_RS23850 (PQP91_23850) | 16513..18348 | + | 1836 | WP_000053823 | type IV secretory system conjugative DNA transfer family protein | - |
| PQP91_RS23855 (PQP91_23855) | 18345..18758 | + | 414 | WP_001575522 | cag pathogenicity island Cag12 family protein | - |
| PQP91_RS23860 (PQP91_23860) | 18755..19057 | + | 303 | WP_015059377 | TrbM/KikA/MpfK family conjugal transfer protein | - |
| PQP91_RS23865 (PQP91_23865) | 19170..19364 | + | 195 | Protein_26 | ATP-binding protein | - |
| PQP91_RS23870 (PQP91_23870) | 19368..19943 | + | 576 | WP_001198970 | hypothetical protein | - |
Host bacterium
| ID | 13677 | GenBank | NZ_CP117337 |
| Plasmid name | pRM052_1 | Incompatibility group | IncFII |
| Plasmid size | 150540 bp | Coordinate of oriT [Strand] | 3397..4003 [-] |
| Host baterium | Salmonella enterica subsp. enterica serovar Dublin strain RM052 |
Cargo genes
| Drug resistance gene | floR, tet(A), aph(6)-Id, aph(3'')-Ib, sul2 |
| Virulence gene | faeH, faeI, fdeC, spvC, spvB |
| Metal resistance gene | merR, merT, merP, merA, merB, merD, merE |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |