Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 100810 |
| Name | oriT_pSLy4  |
| Organism | Escherichia coli strain 210205630 isolate 210205630 |
| Sequence Completeness | intact |
| NCBI accession of oriT (coordinates [strand]) | NZ_CP015916 (4170..4253 [-], 84 nt) |
| oriT length | 84 nt |
| IRs (inverted repeats) | 32..50, 53..71 (GCAAACGGAATATCGTCGC..GTGACGGTATTACATTTGC) |
| Location of nic site | 79..80 |
| Conserved sequence flanking the nic site |
CATCCTG|T |
| Note | predicted by the oriTfinder |
oriT sequence
Download Length: 84 nt
>oriT_pSLy4
CGGGGTGTCGGGGCGAAGCCCTGACCAGATGGCAAACGGAATATCGTCGCGGGTGACGGTATTACATTTGCACATCCTGTCCCG
CGGGGTGTCGGGGCGAAGCCCTGACCAGATGGCAAACGGAATATCGTCGCGGGTGACGGTATTACATTTGCACATCCTGTCCCG
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 882 | GenBank | WP_065304504 |
| Name | NikB_pSLy4 |
UniProt ID | _ |
| Length | 899 a.a. | PDB ID | |
| Note | putative relaxase | ||
Relaxase protein sequence
Download Length: 899 a.a. Molecular weight: 103864.36 Da Isoelectric Point: 7.3473
>WP_065304504.1 MULTISPECIES: IncI1-type relaxase NikB [Enterobacteriaceae]
MNAVIPKKRRDGKSSFEDLVSYVSVRDDMTDEELNLSSSSQAEQPHRSRFSRLVDYATRLRNESFVALVD
VMKDGCEWVNFYGVTCFHNCTSLETAAADMEYIAQQAHYAKDNTDPVFHYILSWQAHESPRPEQIYDSVR
HTLKSLGLGEHQYVSAVHTDTDNLHVHVAVNRVHPVTGYLNCLSWSQEKLSRACRELELKHGFAPDNGCW
VHAPGNRIVRKTAVERDRQNAWTRGKKQTFREYVAQTAVAGLRSEPVHDWLSLHRRLAEDGLYLSQMDGK
FLVMDGWDRNREGVQLDSFGPSWCAEKLMKKMGDYTPVPKDIFSQVEAPGRYNPDFIAADVRPEKIAETE
SLQQYACRHLGERLPEMAREGRLENCQAIHRTLAEAGLWMRVQHGHLVICDGYDHNQTPVRADSVWSLLT
LDNVNQLDGGWQPVPTDIFLQVTPTERFRGRRMESCPTTDKEWHRMRTGTGPQGAIKRELFSDKESLWGY
SISHCSPQIEEMITQGEFTWQRCHELFAQQGLMLQKQHHGLVVVDAFNHEQTPVKASSIHPDLTLGRAEP
QAGPFVSAPADLFDRVQPESRYNPELAVSDRYGVSSKRDPMLRRQRREARAEARADLRARYLAWREQWRK
PDLRYGERCREIHQACRLRKSHIRAQYDDPALRKLHYHIAEVQRMQALIRLKEDIRDERQKLIADGKWYP
PSYRQWVEIQAAQGDRAAVSQLRGWDYRDRRKDKSRTTTTDRCVVLCEPGGTPVYGNTGDLEARLQKNGS
VRFRDRRTGEFVCTDYGDRVVFRNHHDRNALADKLDLIAPVLFGRDPRMGFEPEGNDKQFNQVFAEMVAW
HNVTGRTGHEDYRITRPDVDHHREGSERYYRDYIAANSNDDASLPPPEQDKRWEPPSPG
MNAVIPKKRRDGKSSFEDLVSYVSVRDDMTDEELNLSSSSQAEQPHRSRFSRLVDYATRLRNESFVALVD
VMKDGCEWVNFYGVTCFHNCTSLETAAADMEYIAQQAHYAKDNTDPVFHYILSWQAHESPRPEQIYDSVR
HTLKSLGLGEHQYVSAVHTDTDNLHVHVAVNRVHPVTGYLNCLSWSQEKLSRACRELELKHGFAPDNGCW
VHAPGNRIVRKTAVERDRQNAWTRGKKQTFREYVAQTAVAGLRSEPVHDWLSLHRRLAEDGLYLSQMDGK
FLVMDGWDRNREGVQLDSFGPSWCAEKLMKKMGDYTPVPKDIFSQVEAPGRYNPDFIAADVRPEKIAETE
SLQQYACRHLGERLPEMAREGRLENCQAIHRTLAEAGLWMRVQHGHLVICDGYDHNQTPVRADSVWSLLT
LDNVNQLDGGWQPVPTDIFLQVTPTERFRGRRMESCPTTDKEWHRMRTGTGPQGAIKRELFSDKESLWGY
SISHCSPQIEEMITQGEFTWQRCHELFAQQGLMLQKQHHGLVVVDAFNHEQTPVKASSIHPDLTLGRAEP
QAGPFVSAPADLFDRVQPESRYNPELAVSDRYGVSSKRDPMLRRQRREARAEARADLRARYLAWREQWRK
PDLRYGERCREIHQACRLRKSHIRAQYDDPALRKLHYHIAEVQRMQALIRLKEDIRDERQKLIADGKWYP
PSYRQWVEIQAAQGDRAAVSQLRGWDYRDRRKDKSRTTTTDRCVVLCEPGGTPVYGNTGDLEARLQKNGS
VRFRDRRTGEFVCTDYGDRVVFRNHHDRNALADKLDLIAPVLFGRDPRMGFEPEGNDKQFNQVFAEMVAW
HNVTGRTGHEDYRITRPDVDHHREGSERYYRDYIAANSNDDASLPPPEQDKRWEPPSPG
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 9630..47876
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| A9C00_RS26600 (A9C00_26600) | 7346..9637 | - | 2292 | WP_001289269 | F-type conjugative transfer protein TrbC | - |
| A9C00_RS26605 (A9C00_26605) | 9630..10700 | - | 1071 | WP_000151576 | IncI1-type conjugal transfer protein TrbB | trbB |
| A9C00_RS26610 (A9C00_26610) | 10719..11927 | - | 1209 | WP_000121273 | IncI1-type conjugal transfer protein TrbA | trbA |
| A9C00_RS26615 (A9C00_26615) | 12219..12371 | + | 153 | WP_001303307 | Hok/Gef family protein | - |
| A9C00_RS26620 (A9C00_26620) | 12443..12694 | - | 252 | WP_001291965 | hypothetical protein | - |
| A9C00_RS31030 (A9C00_26625) | 13618..13794 | - | 177 | WP_001054900 | hypothetical protein | - |
| A9C00_RS26635 (A9C00_26635) | 14186..14395 | + | 210 | WP_000062603 | HEAT repeat domain-containing protein | - |
| A9C00_RS26640 (A9C00_26640) | 14467..15129 | - | 663 | WP_000644794 | plasmid IncI1-type surface exclusion protein ExcA | - |
| A9C00_RS26645 (A9C00_26645) | 15200..17368 | - | 2169 | WP_000698368 | DotA/TraY family protein | traY |
| A9C00_RS26650 (A9C00_26650) | 17465..18049 | - | 585 | WP_001037985 | IncI1-type conjugal transfer protein TraX | - |
| A9C00_RS26655 (A9C00_26655) | 18078..19280 | - | 1203 | WP_021555368 | IncI1-type conjugal transfer protein TraW | traW |
| A9C00_RS26660 (A9C00_26660) | 19247..19861 | - | 615 | WP_001542516 | IncI1-type conjugal transfer protein TraV | traV |
| A9C00_RS26665 (A9C00_26665) | 19861..22905 | - | 3045 | WP_001024752 | IncI1-type conjugal transfer protein TraU | traU |
| A9C00_RS26670 (A9C00_26670) | 22995..23795 | - | 801 | WP_001164788 | IncI1-type conjugal transfer protein TraT | traT |
| A9C00_RS26675 (A9C00_26675) | 23779..23967 | - | 189 | WP_001277255 | putative conjugal transfer protein TraS | - |
| A9C00_RS26680 (A9C00_26680) | 24031..24435 | - | 405 | WP_000086960 | IncI1-type conjugal transfer protein TraR | traR |
| A9C00_RS26685 (A9C00_26685) | 24486..25013 | - | 528 | WP_001055569 | conjugal transfer protein TraQ | traQ |
| A9C00_RS26690 (A9C00_26690) | 25013..25717 | - | 705 | WP_040027719 | IncI1-type conjugal transfer protein TraP | traP |
| A9C00_RS26695 (A9C00_26695) | 25717..27006 | - | 1290 | WP_001271994 | conjugal transfer protein TraO | traO |
| A9C00_RS26700 (A9C00_26700) | 27009..27992 | - | 984 | WP_021513963 | IncI1-type conjugal transfer protein TraN | traN |
| A9C00_RS26705 (A9C00_26705) | 28003..28695 | - | 693 | WP_000138552 | DotI/IcmL family type IV secretion protein | traM |
| A9C00_RS26710 (A9C00_26710) | 28692..29039 | - | 348 | WP_001055900 | conjugal transfer protein | traL |
| A9C00_RS26715 (A9C00_26715) | 29057..32824 | - | 3768 | WP_061348655 | LPD7 domain-containing protein | - |
| A9C00_RS26720 (A9C00_26720) | 32914..33465 | - | 552 | WP_000014584 | phospholipase D family protein | - |
| A9C00_RS29115 | 33480..33770 | - | 291 | WP_001299214 | hypothetical protein | traK |
| A9C00_RS26725 (A9C00_26725) | 33767..34915 | - | 1149 | WP_001024972 | plasmid transfer ATPase TraJ | virB11 |
| A9C00_RS26730 (A9C00_26730) | 34912..35730 | - | 819 | WP_000646097 | IncI1-type conjugal transfer lipoprotein TraI | traI |
| A9C00_RS26735 (A9C00_26735) | 35727..36185 | - | 459 | WP_001079808 | IncI1-type conjugal transfer lipoprotein TraH | - |
| A9C00_RS26740 (A9C00_26740) | 36580..37164 | - | 585 | WP_000977522 | histidine phosphatase family protein | - |
| A9C00_RS26745 (A9C00_26745) | 37224..38426 | - | 1203 | WP_000976353 | conjugal transfer protein TraF | - |
| A9C00_RS26750 (A9C00_26750) | 38512..39336 | - | 825 | WP_001238927 | conjugal transfer protein TraE | traE |
| A9C00_RS26755 (A9C00_26755) | 39487..40641 | - | 1155 | WP_001139958 | site-specific integrase | - |
| A9C00_RS31470 | 40640..40924 | + | 285 | WP_187642572 | pilus assembly protein PilV | - |
| A9C00_RS30595 | 41833..42081 | + | 249 | WP_001349157 | hypothetical protein | - |
| A9C00_RS26770 (A9C00_26770) | 42078..43370 | - | 1293 | WP_001417545 | shufflon system plasmid conjugative transfer pilus tip adhesin PilV | - |
| A9C00_RS26775 (A9C00_26775) | 43370..44026 | - | 657 | WP_001389386 | prepilin peptidase | - |
| A9C00_RS26780 (A9C00_26780) | 44011..44571 | - | 561 | WP_000014116 | lytic transglycosylase domain-containing protein | virB1 |
| A9C00_RS26785 (A9C00_26785) | 44581..45195 | - | 615 | WP_000959786 | type 4 pilus major pilin | - |
| A9C00_RS26790 (A9C00_26790) | 45213..46310 | - | 1098 | WP_001208805 | type II secretion system F family protein | - |
| A9C00_RS26795 (A9C00_26795) | 46323..47876 | - | 1554 | WP_000362202 | ATPase, T2SS/T4P/T4SS family | virB11 |
| A9C00_RS26800 (A9C00_26800) | 47887..48339 | - | 453 | WP_001247334 | type IV pilus biogenesis protein PilP | - |
| A9C00_RS26805 (A9C00_26805) | 48326..49621 | - | 1296 | WP_000752772 | type 4b pilus protein PilO2 | - |
| A9C00_RS26810 (A9C00_26810) | 49614..51296 | - | 1683 | WP_000748143 | PilN family type IVB pilus formation outer membrane protein | - |
| A9C00_RS26815 (A9C00_26815) | 51310..51747 | - | 438 | WP_000539807 | type IV pilus biogenesis protein PilM | - |
| A9C00_RS26820 (A9C00_26820) | 51747..52814 | - | 1068 | WP_001302629 | type IV pilus biogenesis lipoprotein PilL | - |
Host bacterium
| ID | 1270 | GenBank | NZ_CP015916 |
| Plasmid name | pSLy4 | Incompatibility group | IncI1 |
| Plasmid size | 100096 bp | Coordinate of oriT [Strand] | 4170..4253 [-] |
| Host baterium | Escherichia coli strain 210205630 isolate 210205630 |
Cargo genes
| Drug resistance gene | - |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |