Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 100569 |
| Name | oriT_pHNAH4-1  |
| Organism | Escherichia coli |
| Sequence Completeness | intact |
| NCBI accession of oriT (coordinates [strand]) | NC_024955 (55669..55778 [-], 110 nt) |
| oriT length | 110 nt |
| IRs (inverted repeats) | IR1: 24..31, 35..42 (GTCGGGGC..GCCCTGAC) IR2: 49..65, 72..88 (GCAATTGTAATAGCGTC..GACGGTATTACAATTGC) |
| Location of nic site | 96..97 |
| Conserved sequence flanking the nic site |
CATCCTG|T |
| Note | predicted by the oriTfinder |
oriT sequence
Download Length: 110 nt
>oriT_pHNAH4-1
TCACTTCAGGCTCCTTACGGGGTGTCGGGGCGAAGCCCTGACCAGATGGCAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTGCACATCCTGTCCCGTTTTTCAGG
TCACTTCAGGCTCCTTACGGGGTGTCGGGGCGAAGCCCTGACCAGATGGCAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTGCACATCCTGTCCCGTTTTTCAGG
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 641 | GenBank | YP_009060040 |
| Name | NikB_pHNAH4-1 |
UniProt ID | A0A023UG69 |
| Length | 871 a.a. | PDB ID | |
| Note | putative relaxase | ||
Relaxase protein sequence
Download Length: 871 a.a. Molecular weight: 100815.80 Da Isoelectric Point: 7.3426
>YP_009060040.1 relaxase/mobilization nuclease domain protein NikB (plasmid) [Escherichia coli]
MTDEELNLSSSSQAEQPHRSRFSRLVDYATRLRNESFVALVDVMKDGCEWVNFYGVTCFHNCTSLETAAA
DMEYIARQAHYAKDDTDPVFHYILSWQSHESPRPEQIYDSVRHTLKSLGLADHQYVSAVHTDTDNLHVHV
AVNRVHPETGYLNRLSWSQEKLSRACRELELKHGFAPDNGCWVHAPGNRIVRKTAVERDRQNAWTRGKKQ
TFREYVAQTAVAGLRSEPVNDWLSLHRRLAEDGLYLSQMDGKFLVMDGWDRNREGVQLDSFGPSWCAEKL
MKKMGDYTPVPKDIFSQVEAPGRYNPDFIAADVRPEKIAETESLQQYACRHLGERLPEMAREGRLENCQA
IHRTLAEAGLWMRVQHGHLVICDGYDHNQTPVRADSVWSLLTLDNVNQLDGGWQPVPTDIFRQVTPTERF
RGRRMESCPATDKEWHRMRTGTGPQGAIKRELFSDKESLWGYSISHCSPQIEEMITQGEFTWQRCHELFA
QQGLMLQKQHHGLVVVDAFNHEQTPVKASSIHPDLTLGRAEPQAGPFVSAPADLFDRVQPESRYNPELAV
SDRYGVSSKRDPMLRRQRREARAEARADLRARYLAWREQWRKPDLRYGERCREIHQACRLRKSHIRAQYD
DPALRKLHYHIAEVQRMQALIRLKEDIRDERQKLIADGKWYPPSYRQWVEIQAAQGDRAAVSQLRGWDYR
DRRKDRSRTTTTDRCVVLCEPGGTPVYGNTGDLEARLQKNGSVRFRDRRTGEFVCTDYGDRVVFRNHHDR
NALADKLDLIAPVLFGRDPRMGFEPEGNDKQFNQVFAEMVAWHNVTGRTGHEDYRITRPDVDHHREGSER
YYRDYIAANSNDDASLPPPEQDKRWEPPSPG
MTDEELNLSSSSQAEQPHRSRFSRLVDYATRLRNESFVALVDVMKDGCEWVNFYGVTCFHNCTSLETAAA
DMEYIARQAHYAKDDTDPVFHYILSWQSHESPRPEQIYDSVRHTLKSLGLADHQYVSAVHTDTDNLHVHV
AVNRVHPETGYLNRLSWSQEKLSRACRELELKHGFAPDNGCWVHAPGNRIVRKTAVERDRQNAWTRGKKQ
TFREYVAQTAVAGLRSEPVNDWLSLHRRLAEDGLYLSQMDGKFLVMDGWDRNREGVQLDSFGPSWCAEKL
MKKMGDYTPVPKDIFSQVEAPGRYNPDFIAADVRPEKIAETESLQQYACRHLGERLPEMAREGRLENCQA
IHRTLAEAGLWMRVQHGHLVICDGYDHNQTPVRADSVWSLLTLDNVNQLDGGWQPVPTDIFRQVTPTERF
RGRRMESCPATDKEWHRMRTGTGPQGAIKRELFSDKESLWGYSISHCSPQIEEMITQGEFTWQRCHELFA
QQGLMLQKQHHGLVVVDAFNHEQTPVKASSIHPDLTLGRAEPQAGPFVSAPADLFDRVQPESRYNPELAV
SDRYGVSSKRDPMLRRQRREARAEARADLRARYLAWREQWRKPDLRYGERCREIHQACRLRKSHIRAQYD
DPALRKLHYHIAEVQRMQALIRLKEDIRDERQKLIADGKWYPPSYRQWVEIQAAQGDRAAVSQLRGWDYR
DRRKDRSRTTTTDRCVVLCEPGGTPVYGNTGDLEARLQKNGSVRFRDRRTGEFVCTDYGDRVVFRNHHDR
NALADKLDLIAPVLFGRDPRMGFEPEGNDKQFNQVFAEMVAWHNVTGRTGHEDYRITRPDVDHHREGSER
YYRDYIAANSNDDASLPPPEQDKRWEPPSPG
Protein domains
Predicted by InterproScan.
Protein structure
| Source | ID | Structure |
|---|---|---|
| AlphaFold DB | A0A023UG69 |
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 61138..99119
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| HTC07_RS00365 (orf00089) | 58854..61145 | - | 2292 | WP_001289276 | F-type conjugative transfer protein TrbC | - |
| HTC07_RS00370 (orf00090) | 61138..62208 | - | 1071 | WP_000151582 | IncI1-type conjugal transfer protein TrbB | trbB |
| HTC07_RS00375 (orf00091) | 62227..63435 | - | 1209 | WP_000121273 | IncI1-type conjugal transfer protein TrbA | trbA |
| HTC07_RS00380 (orf00093) | 63727..63879 | + | 153 | WP_001331364 | Hok/Gef family protein | - |
| HTC07_RS00385 | 63951..64202 | - | 252 | WP_001291964 | hypothetical protein | - |
| HTC07_RS00630 | 64701..64796 | + | 96 | WP_001303310 | DinQ-like type I toxin DqlB | - |
| HTC07_RS00390 | 64861..65145 | - | 285 | WP_001707309 | hypothetical protein | - |
| HTC07_RS00395 | 65435..65638 | + | 204 | WP_242596808 | HEAT repeat domain-containing protein | - |
| HTC07_RS00400 (orf00095) | 65710..66372 | - | 663 | WP_000644796 | plasmid IncI1-type surface exclusion protein ExcA | - |
| HTC07_RS00405 (orf00096) | 66443..68611 | - | 2169 | WP_000698354 | DotA/TraY family protein | traY |
| HTC07_RS00410 (orf00097) | 68708..69292 | - | 585 | WP_001037987 | IncI1-type conjugal transfer protein TraX | - |
| HTC07_RS00415 (orf00098) | 69321..70523 | - | 1203 | WP_001385654 | IncI1-type conjugal transfer protein TraW | traW |
| HTC07_RS00420 (orf00099) | 70490..71104 | - | 615 | WP_000337399 | IncI1-type conjugal transfer protein TraV | traV |
| HTC07_RS00425 (orf00100) | 71104..74148 | - | 3045 | WP_001024780 | IncI1-type conjugal transfer protein TraU | traU |
| HTC07_RS00430 (orf00101) | 74238..75038 | - | 801 | WP_001164788 | IncI1-type conjugal transfer protein TraT | traT |
| HTC07_RS00435 (orf00102) | 75022..75210 | - | 189 | WP_001277255 | putative conjugal transfer protein TraS | - |
| HTC07_RS00440 (orf00103) | 75274..75678 | - | 405 | WP_000086958 | IncI1-type conjugal transfer protein TraR | traR |
| HTC07_RS00445 (orf00104) | 75729..76256 | - | 528 | WP_001055569 | conjugal transfer protein TraQ | traQ |
| HTC07_RS00450 (orf00105) | 76256..76960 | - | 705 | WP_000801920 | IncI1-type conjugal transfer protein TraP | traP |
| HTC07_RS00455 (orf00106) | 76960..78249 | - | 1290 | WP_001272003 | conjugal transfer protein TraO | traO |
| HTC07_RS00460 (orf00107) | 78252..79235 | - | 984 | WP_001191877 | IncI1-type conjugal transfer protein TraN | traN |
| HTC07_RS00465 (orf00108) | 79246..79938 | - | 693 | WP_000138550 | DotI/IcmL family type IV secretion protein | traM |
| HTC07_RS00470 (orf00109) | 79935..80282 | - | 348 | WP_001055900 | conjugal transfer protein | traL |
| HTC07_RS00475 (orf00111) | 80300..84067 | - | 3768 | WP_031942279 | LPD7 domain-containing protein | - |
| HTC07_RS00480 (orf00113) | 84157..84708 | - | 552 | WP_000014583 | phospholipase D family protein | - |
| HTC07_RS00625 (orf00112) | 84723..85013 | - | 291 | WP_001299214 | hypothetical protein | traK |
| HTC07_RS00485 (orf00114) | 85010..86158 | - | 1149 | WP_001024972 | plasmid transfer ATPase TraJ | virB11 |
| HTC07_RS00490 (orf00115) | 86155..86973 | - | 819 | WP_000646098 | IncI1-type conjugal transfer lipoprotein TraI | traI |
| HTC07_RS00495 (orf00116) | 86970..87428 | - | 459 | WP_001079808 | IncI1-type conjugal transfer lipoprotein TraH | - |
| HTC07_RS00500 (orf00117) | 87823..88407 | - | 585 | WP_031942280 | histidine phosphatase family protein | - |
| HTC07_RS00505 (orf00118) | 88467..89669 | - | 1203 | WP_000976353 | conjugal transfer protein TraF | - |
| HTC07_RS00510 (orf00119) | 89755..90579 | - | 825 | WP_001238927 | conjugal transfer protein TraE | traE |
| HTC07_RS00515 (orf00120) | 90730..91884 | - | 1155 | WP_001139958 | site-specific integrase | - |
| HTC07_RS00520 | 91883..92194 | + | 312 | WP_000958120 | hypothetical protein | - |
| HTC07_RS00530 (orf00122) | 93189..94613 | - | 1425 | WP_172685503 | shufflon system plasmid conjugative transfer pilus tip adhesin PilV | - |
| HTC07_RS00535 (orf00123) | 94613..95269 | - | 657 | WP_001193554 | prepilin peptidase | - |
| HTC07_RS00540 | 95254..95814 | - | 561 | WP_000014116 | lytic transglycosylase domain-containing protein | virB1 |
| HTC07_RS00545 (orf00125) | 95824..96438 | - | 615 | WP_000959785 | type 4 pilus major pilin | - |
| HTC07_RS00550 (orf00126) | 96456..97553 | - | 1098 | WP_001208805 | type II secretion system F family protein | - |
| HTC07_RS00555 (orf00127) | 97566..99119 | - | 1554 | WP_000362202 | ATPase, T2SS/T4P/T4SS family | virB11 |
| HTC07_RS00560 (orf00128) | 99130..99582 | - | 453 | WP_001247334 | type IV pilus biogenesis protein PilP | - |
| HTC07_RS00565 (orf00129) | 99569..100864 | - | 1296 | WP_000752772 | type 4b pilus protein PilO2 | - |
| HTC07_RS00570 (orf00130) | 100857..102539 | - | 1683 | WP_000748143 | PilN family type IVB pilus formation outer membrane protein | - |
| HTC07_RS00575 (orf00131) | 102553..102990 | - | 438 | WP_000539807 | type IV pilus biogenesis protein PilM | - |
| HTC07_RS00580 (orf00132) | 102990..104057 | - | 1068 | WP_001302629 | type IV pilus biogenesis lipoprotein PilL | - |
Host bacterium
| ID | 1029 | GenBank | NC_024955 |
| Plasmid name | pHNAH4-1 | Incompatibility group | IncI1 |
| Plasmid size | 109191 bp | Coordinate of oriT [Strand] | 55669..55778 [-] |
| Host baterium | Escherichia coli |
Cargo genes
| Drug resistance gene | mph(A), blaCTX-M-123 |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |