Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 100314 |
| Name | oriT_pECOED  |
| Organism | Escherichia coli ED1a |
| Sequence Completeness | intact |
| NCBI accession of oriT (coordinates [strand]) | NC_011754 (47131..47230 [-], 100 nt) |
| oriT length | 100 nt |
| IRs (inverted repeats) | IR1: 16..23, 27..34 (GTCGGGGC..GCCCTGAC) IR2: 41..58, 61..78 (GGGAATGTCTGAGCGAGC..GCGCGGTCCGACATTCCC) |
| Location of nic site | 86..87 |
| Conserved sequence flanking the nic site |
CATCCTG|T |
| Note | predicted by the oriTfinder |
oriT sequence
Download Length: 100 nt
>oriT_pECOED
GCTCCTTACCGGGGTGTCGGGGCGAAGCCCTGACCAGGTGGGGAATGTCTGAGCGAGCGTGCGCGGTCCGACATTCCCACATCCTGTCCCGTTTTTCAGG
GCTCCTTACCGGGGTGTCGGGGCGAAGCCCTGACCAGGTGGGGAATGTCTGAGCGAGCGTGCGCGGTCCGACATTCCCACATCCTGTCCCGTTTTTCAGG
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 385 | GenBank | YP_002418725 |
| Name | Relaxase_pECOED |
UniProt ID | B7LIM6 |
| Length | 903 a.a. | PDB ID | |
| Note | putative relaxase | ||
Relaxase protein sequence
Download Length: 903 a.a. Molecular weight: 104551.81 Da Isoelectric Point: 7.3261
>YP_002418725.1 Relaxase (plasmid) [Escherichia coli ED1a]
MNAIIPHKRRDGRSSFEDLIAYTSVRDDVQENELSEDSEIKSDVPHRNRFRRLVDYATRLRNEKFVSLID
VMKDGSQWVNFYGVTCFHNCNSLETAAEEMQYKADKAVFSRNDTDPVFHYILSWPAHESPRPEQLFDCVR
HTLKSLELSKHQYVAAVHTDTDNLHVHVAVNRVHPETGYINWLSWSQEKLSRACRELELKHGFAPDNGCF
VHAPGNRIVRKTALVRERRNAWRRGKKQTFREYIAQMSIAGLREEPAQDWLSLHKRLASDGLYITMQEGE
LVVKDGWDSAREGVALSSFGPSWTAEKLGRKLGEYQPVPTDIFSQVGTPGRYDPEAINVDIRPEKVAETE
SLKQYACRYFAERLPEMARNGELESCLDVHRTLAKAGLWMGIQHGHLVLHDGFDKQQTPVRADSVWPLMT
LDYMQDLDGGWQPVPKDIFTQVIPGERFRGRNLGTQAVSDYEWYRMRMGTGPQGAIKRELFSDKESLWGY
TTVQCESLIEDMIAGGNFSWQACHEMFARKGLMLQKQHHGLVIVDAFNHELTPVKASSIHPDLTLSRAEL
QAGPFEIAGADIFERVKPECRYNPELAASDEVEPGFRRDPVLRRERREARAAAREDLRARYLAWKEHWRK
PDLRYGERLREIHAACRRRKAYIRVQFRDPQLRKLHYHIAEVQRMQALIRLKESVKEERLSLIAEGKWYP
LSYRQWVEQQAVQGDRAALSQLRGWDYRDRRKDKRRTTNADRCVILCEPGGTPLYEDTGVLEARLQKDGS
VRFRDRRNGELVCVDYGDRVVFYHHQDRNELVDKLNLIAPVLFDREPGMGFEPEGSYQQFNDVFAEMVAW
HNAAGITGNGHFAISRPDVDLHRQRSEQYYHEYIRQQKSISGGNDTSYTPVQDNEWTPPSPGM
MNAIIPHKRRDGRSSFEDLIAYTSVRDDVQENELSEDSEIKSDVPHRNRFRRLVDYATRLRNEKFVSLID
VMKDGSQWVNFYGVTCFHNCNSLETAAEEMQYKADKAVFSRNDTDPVFHYILSWPAHESPRPEQLFDCVR
HTLKSLELSKHQYVAAVHTDTDNLHVHVAVNRVHPETGYINWLSWSQEKLSRACRELELKHGFAPDNGCF
VHAPGNRIVRKTALVRERRNAWRRGKKQTFREYIAQMSIAGLREEPAQDWLSLHKRLASDGLYITMQEGE
LVVKDGWDSAREGVALSSFGPSWTAEKLGRKLGEYQPVPTDIFSQVGTPGRYDPEAINVDIRPEKVAETE
SLKQYACRYFAERLPEMARNGELESCLDVHRTLAKAGLWMGIQHGHLVLHDGFDKQQTPVRADSVWPLMT
LDYMQDLDGGWQPVPKDIFTQVIPGERFRGRNLGTQAVSDYEWYRMRMGTGPQGAIKRELFSDKESLWGY
TTVQCESLIEDMIAGGNFSWQACHEMFARKGLMLQKQHHGLVIVDAFNHELTPVKASSIHPDLTLSRAEL
QAGPFEIAGADIFERVKPECRYNPELAASDEVEPGFRRDPVLRRERREARAAAREDLRARYLAWKEHWRK
PDLRYGERLREIHAACRRRKAYIRVQFRDPQLRKLHYHIAEVQRMQALIRLKESVKEERLSLIAEGKWYP
LSYRQWVEQQAVQGDRAALSQLRGWDYRDRRKDKRRTTNADRCVILCEPGGTPLYEDTGVLEARLQKDGS
VRFRDRRNGELVCVDYGDRVVFYHHQDRNELVDKLNLIAPVLFDREPGMGFEPEGSYQQFNDVFAEMVAW
HNAAGITGNGHFAISRPDVDLHRQRSEQYYHEYIRQQKSISGGNDTSYTPVQDNEWTPPSPGM
Protein domains
Predicted by InterproScan.
Protein structure
| Source | ID | Structure |
|---|---|---|
| AlphaFold DB | B7LIM6 |
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 65627..106385
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| HXG02_RS00740 | 61954..62034 | - | 81 | Protein_86 | hypothetical protein | - |
| HXG02_RS00405 | 62078..63291 | - | 1214 | Protein_87 | IS3 family transposase | - |
| HXG02_RS00410 (pECED1a_0093) | 63343..65646 | - | 2304 | WP_012605159 | F-type conjugative transfer protein TrbC | - |
| HXG02_RS00415 (pECED1a_0094) | 65627..66751 | - | 1125 | WP_012605160 | DsbC family protein | trbB |
| HXG02_RS00420 (pECED1a_0096) | 66748..68109 | - | 1362 | WP_012605162 | hypothetical protein | trbA |
| HXG02_RS00755 | 68608..68706 | + | 99 | WP_001681653 | DinQ-like type I toxin DqlB | - |
| HXG02_RS00425 (pECED1a_0097) | 68766..68942 | - | 177 | WP_001054907 | hypothetical protein | - |
| HXG02_RS00430 (pECED1a_0098) | 69093..69560 | - | 468 | WP_001681654 | thermonuclease family protein | - |
| HXG02_RS00435 (pECED1a_0099) | 69725..70348 | + | 624 | WP_012605164 | hypothetical protein | - |
| HXG02_RS00440 | 70437..70892 | + | 456 | WP_021565161 | DUF2569 family protein | - |
| HXG02_RS00445 (pECED1a_0100) | 71092..72627 | + | 1536 | WP_176455201 | phosphoethanolamine transferase | - |
| HXG02_RS00450 (pECED1a_0101) | 72720..73082 | - | 363 | WP_000551914 | hypothetical protein | - |
| HXG02_RS00455 | 73296..73448 | + | 153 | WP_001367784 | Hok/Gef family protein | - |
| HXG02_RS00460 (pECED1a_0102) | 73445..73606 | - | 162 | WP_001138649 | hypothetical protein | - |
| HXG02_RS00465 (pECED1a_0103) | 73762..74409 | - | 648 | WP_012605166 | plasmid IncI1-type surface exclusion protein ExcA | - |
| HXG02_RS00470 (pECED1a_0104) | 74497..76656 | - | 2160 | WP_012605167 | DotA/TraY family protein | traY |
| HXG02_RS00475 (pECED1a_0105) | 76731..77300 | - | 570 | WP_012605168 | conjugal transfer protein TraX | - |
| HXG02_RS00480 (pECED1a_0107) | 77297..78502 | - | 1206 | WP_021529220 | conjugal transfer protein TraW | traW |
| HXG02_RS00485 (pECED1a_0108) | 78463..79080 | - | 618 | WP_000286857 | hypothetical protein | traV |
| HXG02_RS00490 (pECED1a_0109) | 79080..82124 | - | 3045 | WP_021516922 | hypothetical protein | traU |
| HXG02_RS00495 | 82300..82683 | - | 384 | WP_224471648 | hypothetical protein | - |
| HXG02_RS00500 (pECED1a_0110) | 82680..83039 | - | 360 | WP_021529222 | hypothetical protein | - |
| HXG02_RS00505 (pECED1a_0111) | 83094..83912 | - | 819 | WP_012605173 | hypothetical protein | traT |
| HXG02_RS00760 (pECED1a_0112) | 83827..84078 | - | 252 | WP_012605174 | hypothetical protein | - |
| HXG02_RS00515 (pECED1a_0113) | 84135..84533 | - | 399 | WP_012605175 | DUF6750 family protein | traR |
| HXG02_RS00520 (pECED1a_0114) | 84581..85111 | - | 531 | WP_000987021 | conjugal transfer protein TraQ | traQ |
| HXG02_RS00525 (pECED1a_0115) | 85108..85821 | - | 714 | WP_012605176 | conjugal transfer protein TraP | traP |
| HXG02_RS00530 (pECED1a_0116) | 85818..87155 | - | 1338 | WP_012605177 | conjugal transfer protein TraO | traO |
| HXG02_RS00535 (pECED1a_0117) | 87159..88133 | - | 975 | WP_021565167 | DotH/IcmK family type IV secretion protein | traN |
| HXG02_RS00540 (pECED1a_0118) | 88144..88839 | - | 696 | WP_012605179 | DotI/IcmL family type IV secretion protein | traM |
| HXG02_RS00545 (pECED1a_0119) | 88851..89201 | - | 351 | WP_001056367 | hypothetical protein | traL |
| HXG02_RS00550 (pECED1a_0120) | 89218..93279 | - | 4062 | WP_012605180 | LPD7 domain-containing protein | - |
| HXG02_RS00555 (pECED1a_0121) | 93343..93633 | - | 291 | WP_000817801 | IcmT/TraK family protein | traK |
| HXG02_RS00560 (pECED1a_0122) | 93630..94778 | - | 1149 | WP_021565170 | plasmid transfer ATPase TraJ | virB11 |
| HXG02_RS00565 (pECED1a_0123) | 94762..95598 | - | 837 | WP_012605182 | type IV secretory system conjugative DNA transfer family protein | traI |
| HXG02_RS00570 (pECED1a_0124) | 95595..96053 | - | 459 | WP_001681674 | DotD/TraH family lipoprotein | - |
| HXG02_RS00575 (pECED1a_0125) | 96157..97359 | - | 1203 | WP_000979993 | conjugal transfer protein TraF | - |
| HXG02_RS00580 (pECED1a_0126) | 97461..98282 | - | 822 | WP_001681675 | hypothetical protein | traE |
| HXG02_RS00585 (pECED1a_0127) | 98544..98882 | + | 339 | WP_001681677 | hypothetical protein | - |
| HXG02_RS00590 (pECED1a_0128) | 99169..100293 | - | 1125 | WP_016237240 | site-specific integrase | - |
| HXG02_RS00595 (pECED1a_0129) | 100345..100746 | + | 402 | Protein_126 | phage tail protein | - |
| HXG02_RS00600 (pECED1a_0130) | 100752..101993 | - | 1242 | WP_001532120 | shufflon system plasmid conjugative transfer pilus tip adhesin PilV | - |
| HXG02_RS00605 (pECED1a_0131) | 101990..102697 | - | 708 | WP_001114349 | A24 family peptidase | - |
| HXG02_RS00610 (pECED1a_0132) | 102657..103139 | - | 483 | WP_001681690 | lytic transglycosylase domain-containing protein | virB1 |
| HXG02_RS00615 (pECED1a_0133) | 103187..103723 | - | 537 | WP_001011500 | type 4 pilus major pilin | - |
| HXG02_RS00620 (pECED1a_0134) | 103775..104875 | - | 1101 | WP_137466544 | type II secretion system F family protein | - |
| HXG02_RS00625 (pECED1a_0135) | 104877..106385 | - | 1509 | WP_012605185 | ATPase, T2SS/T4P/T4SS family | virB11 |
| HXG02_RS00630 (pECED1a_0137) | 106576..106827 | + | 252 | WP_001681796 | hypothetical protein | - |
| HXG02_RS00635 (pECED1a_0138) | 106817..107098 | + | 282 | WP_001681795 | type II toxin-antitoxin system RelE/ParE family toxin | - |
| HXG02_RS00640 (pECED1a_0139) | 107408..107860 | - | 453 | WP_001681794 | type IV pilus biogenesis protein PilP | - |
| HXG02_RS00645 (pECED1a_0140) | 107850..109115 | - | 1266 | WP_048967179 | type 4b pilus protein PilO2 | - |
| HXG02_RS00650 (pECED1a_0141) | 109166..110785 | - | 1620 | WP_012605187 | PilN family type IVB pilus formation outer membrane protein | - |
| HXG02_RS00655 (pECED1a_0142) | 110816..111253 | - | 438 | WP_001681791 | type IV pilus biogenesis protein PilM | - |
Host bacterium
| ID | 776 | GenBank | NC_011754 |
| Plasmid name | pECOED | Incompatibility group | Col156 |
| Plasmid size | 119594 bp | Coordinate of oriT [Strand] | 47131..47230 [-] |
| Host baterium | Escherichia coli ED1a |
Cargo genes
| Drug resistance gene | - |
| Virulence gene | - |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |