Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 100366 |
| Name | oriT_pEC_L46  |
| Organism | Escherichia coli |
| Sequence Completeness | intact |
| NCBI accession of oriT (coordinates [strand]) | NC_014385 (54764..55213 [-], 450 nt) |
| oriT length | 450 nt |
| IRs (inverted repeats) | IR1: 201..215, 222..236 (ATTCATTGGTGAATC..GATTCACCAATGAAT) IR2: 308..315, 318..325 (GCAAAAAC..GTTTTTGC) |
| Location of nic site | 334..335 |
| Conserved sequence flanking the nic site |
GTGGGGTGT|GG |
| Note | predicted by the oriTfinder |
oriT sequence
Download Length: 450 nt
>oriT_pEC_L46
ATATGTATACCTCTTTATTTTCTTATCGCATCAAATTTATTTCACATATAAAAAAATGACAATTCATCGATGAATCGAATCGTGACGCAAGTTACGAAAATTACGATTCATGCAGCAAATCACATCACGAATTGAATCTAGAGTCAATTCGCTTTAACTCGTTGTTTTATTATTACTGATTCATCTATGAGTTGCGTTAAATTCATTGGTGAATCATATGCGATTCACCAATGAATCCTTTTTATAATGTAAAATAAATTAAAATACATTATTTAAAACATAAGTTAATGATTCAAATAGCAAATCAGCAAAAACTTGTTTTTGCGTGGGGTGTGGTGCTTTTGGTGGTGAGAACCACCAACCTGTTGAGCCTTTTTGTGGAGTGGGTTAAATTATTTACGGATAAAGTCACCAGAGGTGGAAAAATGAAAAAATGGATGTTAGCCATCT
ATATGTATACCTCTTTATTTTCTTATCGCATCAAATTTATTTCACATATAAAAAAATGACAATTCATCGATGAATCGAATCGTGACGCAAGTTACGAAAATTACGATTCATGCAGCAAATCACATCACGAATTGAATCTAGAGTCAATTCGCTTTAACTCGTTGTTTTATTATTACTGATTCATCTATGAGTTGCGTTAAATTCATTGGTGAATCATATGCGATTCACCAATGAATCCTTTTTATAATGTAAAATAAATTAAAATACATTATTTAAAACATAAGTTAATGATTCAAATAGCAAATCAGCAAAAACTTGTTTTTGCGTGGGGTGTGGTGCTTTTGGTGGTGAGAACCACCAACCTGTTGAGCCTTTTTGTGGAGTGGGTTAAATTATTTACGGATAAAGTCACCAGAGGTGGAAAAATGAAAAAATGGATGTTAGCCATCT
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 437 | GenBank | YP_003829308 |
| Name | Nickase_pEC_L46 |
UniProt ID | D9Z5Q2 |
| Length | 1079 a.a. | PDB ID | |
| Note | putative relaxase | ||
Relaxase protein sequence
Download Length: 1079 a.a. Molecular weight: 120326.56 Da Isoelectric Point: 6.5230
>YP_003829308.1 nickase/helicase (plasmid) [Escherichia coli]
MMLDITTITRQNVTSVVGYYSDAKDDYYSKDSSFTSWQGTGAEALGLSGDVESARFKELLVGEIDTFTHM
QRHVGDAKKERLGYDLTFSAPKGVSMQALIHGDKTIIEAHEKAVAAAVREAEKLAQARTTRQGKSVTQNT
NNLVVATFRHETSRALDPDLHTHAFVMNMTQREDGQWRALKNDELMRNKMHLGDVYKQELALELTKAGYE
LRYNSKNNTFDMAHFSDEQIRAFSRRSEQIEKGLAAMGLTRETADAQTKSRVSMATREKKTEHSREEIHQ
EWASRAKTLGIDFDNREWQGHGKPLEADIARNMAPDFTSPEVKADRAIQFAVKSLSERDASFERQKLIQI
ANKQVLGHATIADVEKAYLKAVQKGAIIEGEARYQSTLKVGASVMAETLTRKEWIDSLTNSGMRADKARF
AVDDGIKNGRLKKTSHRVTTVEGIRLERSILTIESRGRGQMPRQLTAEIAGQLLAGKTLKKEQMRAVTEI
VTSKDRFVAAHGYAGTGKSYMTMAAKELLESQGLKVTALAPYGTQKKALEDDGLPARTVAAFLKAKDKKL
DEKSVVFIDEAGVIPARQMKQLMEVIEKHNARAVFLGDTSQTKAVEAGKPFEQLIKADMQTSYMKDIQRQ
KNEVLLEAVKYAAEGNAARALKNITGVNELKEEAPRLAQLADRYLSLSSEQQDATLIISGTNASRKTLND
YIRGNLGLAGTGETFTLLDRVDSTQAERRDSRYFSKGQIIIPEQDYKNGMKRGESYQVLDTGPGNKLTVE
SSSGEQIAFSPRTHTKLSVYQAVSAELAPGDKVMVTRNDKTLDVANGDRFTVKTVEGEKLTLEDKKGRTV
ELDKKQASYLSYAYATTVHKSQGLTCDRVLFNIDTKSLTTSKDVFYVGISRARHEVEIFTDDKKSLASSV
SRDSPKTTAAEIDRFFGLEARFKDIGRDTSLETRSAEKGLPEATGESMAFNQKPDEHNMTTGTDYQPVSN
AEDAFHLKQNPMDDSVGLRRHEAQQNDAELAHDYAAADDQQWSAQEYADYEHYAEASDYDFDSSIYDDYA
MPQTSQAEQSHTGKEHTHEHEHEEGGHEI
MMLDITTITRQNVTSVVGYYSDAKDDYYSKDSSFTSWQGTGAEALGLSGDVESARFKELLVGEIDTFTHM
QRHVGDAKKERLGYDLTFSAPKGVSMQALIHGDKTIIEAHEKAVAAAVREAEKLAQARTTRQGKSVTQNT
NNLVVATFRHETSRALDPDLHTHAFVMNMTQREDGQWRALKNDELMRNKMHLGDVYKQELALELTKAGYE
LRYNSKNNTFDMAHFSDEQIRAFSRRSEQIEKGLAAMGLTRETADAQTKSRVSMATREKKTEHSREEIHQ
EWASRAKTLGIDFDNREWQGHGKPLEADIARNMAPDFTSPEVKADRAIQFAVKSLSERDASFERQKLIQI
ANKQVLGHATIADVEKAYLKAVQKGAIIEGEARYQSTLKVGASVMAETLTRKEWIDSLTNSGMRADKARF
AVDDGIKNGRLKKTSHRVTTVEGIRLERSILTIESRGRGQMPRQLTAEIAGQLLAGKTLKKEQMRAVTEI
VTSKDRFVAAHGYAGTGKSYMTMAAKELLESQGLKVTALAPYGTQKKALEDDGLPARTVAAFLKAKDKKL
DEKSVVFIDEAGVIPARQMKQLMEVIEKHNARAVFLGDTSQTKAVEAGKPFEQLIKADMQTSYMKDIQRQ
KNEVLLEAVKYAAEGNAARALKNITGVNELKEEAPRLAQLADRYLSLSSEQQDATLIISGTNASRKTLND
YIRGNLGLAGTGETFTLLDRVDSTQAERRDSRYFSKGQIIIPEQDYKNGMKRGESYQVLDTGPGNKLTVE
SSSGEQIAFSPRTHTKLSVYQAVSAELAPGDKVMVTRNDKTLDVANGDRFTVKTVEGEKLTLEDKKGRTV
ELDKKQASYLSYAYATTVHKSQGLTCDRVLFNIDTKSLTTSKDVFYVGISRARHEVEIFTDDKKSLASSV
SRDSPKTTAAEIDRFFGLEARFKDIGRDTSLETRSAEKGLPEATGESMAFNQKPDEHNMTTGTDYQPVSN
AEDAFHLKQNPMDDSVGLRRHEAQQNDAELAHDYAAADDQQWSAQEYADYEHYAEASDYDFDSSIYDDYA
MPQTSQAEQSHTGKEHTHEHEHEEGGHEI
Protein domains
Predicted by InterproScan.
Protein structure
| Source | ID | Structure |
|---|---|---|
| AlphaFold DB | D9Z5Q2 |
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 54279..72123
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| HS661_RS00295 (pECL46p055) | 50246..50680 | + | 435 | WP_000845901 | conjugation system SOS inhibitor PsiB | - |
| HS661_RS00300 (pECL46p056) | 50677..51439 | + | 763 | Protein_62 | plasmid SOS inhibition protein A | - |
| HS661_RS00885 | 51618..51767 | + | 150 | Protein_63 | plasmid maintenance protein Mok | - |
| HS661_RS00305 | 51709..51834 | + | 126 | WP_001372321 | type I toxin-antitoxin system Hok family toxin | - |
| HS661_RS00890 | 52054..52284 | + | 231 | WP_071587244 | hypothetical protein | - |
| HS661_RS00895 | 52282..52455 | - | 174 | Protein_66 | hypothetical protein | - |
| HS661_RS00310 | 52753..53040 | + | 288 | WP_000107537 | hypothetical protein | - |
| HS661_RS00315 | 53161..53982 | + | 822 | WP_001234469 | DUF932 domain-containing protein | - |
| HS661_RS00320 (pECL46p062) | 54279..54926 | - | 648 | WP_000614282 | transglycosylase SLT domain-containing protein | virB1 |
| HS661_RS00325 (pECL46p063) | 55212..55595 | + | 384 | WP_001151564 | conjugal transfer relaxosome DNA-binding protein TraM | - |
| HS661_RS00330 (pECL46p064) | 55789..56475 | + | 687 | WP_000332487 | PAS domain-containing protein | - |
| HS661_RS00335 (pECL46p065) | 56569..56796 | + | 228 | WP_001254388 | conjugal transfer relaxosome protein TraY | - |
| HS661_RS00340 (pECL46p066) | 56830..57192 | + | 363 | WP_001098998 | type IV conjugative transfer system pilin TraA | - |
| HS661_RS00345 (pECL46p067) | 57197..57508 | + | 312 | WP_000012106 | type IV conjugative transfer system protein TraL | traL |
| HS661_RS00350 (pECL46p068) | 57530..58096 | + | 567 | WP_000399804 | type IV conjugative transfer system protein TraE | traE |
| HS661_RS00355 (pECL46p069) | 58083..58811 | + | 729 | WP_001230787 | type-F conjugative transfer system secretin TraK | traK |
| HS661_RS00360 (pECL46p070) | 58811..60238 | + | 1428 | WP_000146638 | F-type conjugal transfer pilus assembly protein TraB | traB |
| HS661_RS00365 (pECL46p071) | 60228..60812 | + | 585 | WP_000002795 | conjugal transfer pilus-stabilizing protein TraP | - |
| HS661_RS00370 (pECL46p072) | 60799..61119 | + | 321 | WP_001057302 | conjugal transfer protein TrbD | virb4 |
| HS661_RS00375 (pECL46p073) | 61112..61363 | + | 252 | WP_001038341 | conjugal transfer protein TrbG | - |
| HS661_RS00380 (pECL46p074) | 61360..61875 | + | 516 | WP_000809893 | type IV conjugative transfer system lipoprotein TraV | traV |
| HS661_RS00385 (pECL46p075) | 62010..62231 | + | 222 | WP_001278978 | conjugal transfer protein TraR | - |
| HS661_RS00390 (pECL46p076) | 62391..65018 | + | 2628 | WP_001064239 | type IV secretion system protein TraC | virb4 |
| HS661_RS00395 (pECL46p077) | 65015..65401 | + | 387 | WP_000214082 | type-F conjugative transfer system protein TrbI | - |
| HS661_RS00400 (pECL46p078) | 65398..66030 | + | 633 | WP_001203720 | type-F conjugative transfer system protein TraW | traW |
| HS661_RS00405 (pECL46p079) | 66027..67019 | + | 993 | WP_000830838 | conjugal transfer pilus assembly protein TraU | traU |
| HS661_RS00410 (pECL46p080) | 67049..67354 | + | 306 | WP_000224411 | hypothetical protein | - |
| HS661_RS00415 (pECL46p081) | 67363..68001 | + | 639 | WP_001080257 | type-F conjugative transfer system pilin assembly protein TrbC | trbC |
| HS661_RS00420 (pECL46p082) | 67998..69806 | + | 1809 | WP_000821863 | type-F conjugative transfer system mating-pair stabilization protein TraN | traN |
| HS661_RS00425 (pECL46p083) | 69833..70090 | + | 258 | WP_000864320 | conjugal transfer protein TrbE | - |
| HS661_RS00430 (pECL46p084) | 70083..70826 | + | 744 | WP_001030371 | type-F conjugative transfer system pilin assembly protein TraF | traF |
| HS661_RS00435 (pECL46p085) | 70842..71180 | + | 339 | WP_001287905 | conjugal transfer protein TrbA | - |
| HS661_RS00440 (pECL46p086) | 71307..71591 | + | 285 | WP_001448202 | type-F conjugative transfer system pilin chaperone TraQ | - |
| HS661_RS00445 (pECL46p087) | 71578..72123 | + | 546 | WP_000059824 | type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB | traF |
| HS661_RS00450 (pECL46p088) | 72053..72394 | + | 342 | WP_001448115 | P-type conjugative transfer protein TrbJ | - |
| HS661_RS00455 (pECL46p089) | 72375..72767 | + | 393 | WP_000660703 | F-type conjugal transfer protein TrbF | - |
| HS661_RS00460 (pECL46p090) | 72754..73266 | + | 513 | Protein_97 | conjugal transfer protein TraH | - |
| HS661_RS00465 (pECL46p091) | 73331..74035 | + | 705 | WP_001067855 | IS6-like element IS26 family transposase | - |
| HS661_RS00470 | 74092..74178 | - | 87 | Protein_99 | class A beta-lactamase LEN-27 | - |
| HS661_RS00475 (pECL46p092) | 74361..74918 | - | 558 | WP_001235713 | recombinase family protein | - |
| HS661_RS00905 | 75082..75225 | + | 144 | Protein_101 | DUF4158 domain-containing protein | - |
| HS661_RS00485 | 75278..75982 | - | 705 | WP_001067855 | IS6-like element IS26 family transposase | - |
| HS661_RS00900 | 75994..76122 | - | 129 | WP_280956880 | hypothetical protein | - |
Region 2: 90716..108580
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| HS661_RS00530 (pECL46p099) | 86456..87061 | + | 606 | WP_000509965 | recombinase family protein | - |
| HS661_RS00535 | 87085..87597 | - | 513 | Protein_113 | Tn3 family transposase | - |
| HS661_RS00540 (pECL46p100) | 87663..88367 | + | 705 | WP_001067855 | IS6-like element IS26 family transposase | - |
| HS661_RS00545 | 88587..89228 | - | 642 | WP_012561158 | restriction endonuclease | - |
| HS661_RS00550 (pECL46p101) | 89284..89595 | - | 312 | WP_013279382 | hypothetical protein | - |
| HS661_RS00555 (pECL46p102) | 89631..89945 | - | 315 | WP_016338363 | TrbM/KikA/MpfK family conjugal transfer protein | - |
| HS661_RS00560 | 89942..90286 | - | 345 | WP_012561155 | hypothetical protein | - |
| HS661_RS00565 | 90302..90679 | - | 378 | WP_193567606 | H-NS family nucleoid-associated regulatory protein | - |
| HS661_RS00570 (pECL46p103) | 90716..91453 | + | 738 | WP_013279384 | lytic transglycosylase domain-containing protein | virB1 |
| HS661_RS00575 (pECL46p104) | 91462..91743 | + | 282 | WP_016338364 | transcriptional repressor KorA | - |
| HS661_RS00580 (pECL46p105) | 91753..92046 | + | 294 | WP_001749962 | hypothetical protein | virB2 |
| HS661_RS00585 (pECL46p106) | 92096..92413 | + | 318 | WP_000496058 | VirB3 family type IV secretion system protein | virB3 |
| HS661_RS00590 | 92413..95013 | + | 2601 | WP_012561149 | VirB4 family type IV secretion/conjugal transfer ATPase | virb4 |
| HS661_RS00595 (pECL46p108) | 95031..95744 | + | 714 | WP_001749960 | type IV secretion system protein | virB5 |
| HS661_RS00600 (pECL46p109) | 95752..95979 | + | 228 | WP_001749959 | IncN-type entry exclusion lipoprotein EexN | - |
| HS661_RS00605 (pECL46p110) | 95995..97035 | + | 1041 | WP_001749958 | type IV secretion system protein | virB6 |
| HS661_RS00610 (pECL46p111) | 97106..97264 | + | 159 | WP_012561180 | hypothetical protein | - |
| HS661_RS00615 (pECL46p112) | 97254..97952 | + | 699 | WP_000646594 | type IV secretion system protein | virB8 |
| HS661_RS00620 (pECL46p113) | 97963..98847 | + | 885 | WP_000735066 | TrbG/VirB9 family P-type conjugative transfer protein | virB9 |
| HS661_RS00625 (pECL46p114) | 98847..100007 | + | 1161 | WP_012561145 | type IV secretion system protein VirB10 | virB10 |
| HS661_RS00630 (pECL46p115) | 100049..101044 | + | 996 | WP_012561144 | ATPase, T2SS/T4P/T4SS family | virB11 |
| HS661_RS00635 | 101044..101577 | + | 534 | WP_000792636 | phospholipase D family protein | - |
| HS661_RS00640 (pECL46p116) | 101750..102064 | - | 315 | WP_000091613 | hypothetical protein | - |
| HS661_RS00645 | 102319..102675 | - | 357 | WP_000215515 | cupin domain-containing protein | - |
| HS661_RS00650 | 102665..103066 | - | 402 | WP_001293886 | DUF86 domain-containing protein | - |
| HS661_RS00655 | 103063..103353 | - | 291 | WP_001247892 | nucleotidyltransferase | - |
| HS661_RS00660 (pECL46p118) | 103417..103815 | - | 399 | WP_012561143 | DUF6710 family protein | - |
| HS661_RS00665 (pECL46p119) | 103815..107051 | - | 3237 | WP_012561142 | MobF family relaxase | - |
| HS661_RS00670 (pECL46p120) | 107051..108580 | - | 1530 | WP_000342688 | type IV secretion system DNA-binding domain-containing protein | virb4 |
| HS661_RS00675 (pECL46p121) | 108582..108998 | - | 417 | WP_001749975 | hypothetical protein | - |
| HS661_RS00680 (pECL46p122) | 109566..109952 | + | 387 | WP_013279398 | plasmid stabilization protein StbA | - |
| HS661_RS00685 (pECL46p123) | 109961..110677 | + | 717 | WP_012561139 | StbB family protein | - |
| HS661_RS00690 (pECL46p124) | 110679..111047 | + | 369 | WP_012561138 | plasmid stabilization protein StbC | - |
| HS661_RS00695 | 111248..111592 | + | 345 | WP_012561137 | hypothetical protein | - |
| HS661_RS00700 (pECL46p125) | 112054..112233 | - | 180 | WP_012561134 | protein CcgAI | - |
Host bacterium
| ID | 827 | GenBank | NC_014385 |
| Plasmid name | pEC_L46 | Incompatibility group | IncFIA |
| Plasmid size | 144871 bp | Coordinate of oriT [Strand] | 54764..55213 [-] |
| Host baterium | Escherichia coli |
Cargo genes
| Drug resistance gene | - |
| Virulence gene | vagC/vagD virulence-associated genes |
| Metal resistance gene | - |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |