Detailed information of oriT
oriT
The information of the oriT region
| oriTDB ID | 115921 |
| Name | oriT_pDW108-119542  |
| Organism | Enterobacter kobei strain DW108 |
| Sequence Completeness | - |
| NCBI accession of oriT (coordinates [strand]) | NZ_CP135148 (108924..108978 [+], 55 nt) |
| oriT length | 55 nt |
| IRs (inverted repeats) | 21..27, 31..37 (GCAAGAC..GTCTTGC) |
| Location of nic site | _ |
| Conserved sequence flanking the nic site |
_ |
| Note | Predicted by oriTfinder 2.0 |
oriT sequence
Download Length: 55 nt
>oriT_pDW108-119542
TGAAATTAAAGAATTAATCTGCAAGACAACGTCTTGCGTGGGGTGTGATGTTTTT
TGAAATTAAAGAATTAATCTGCAAGACAACGTCTTGCGTGGGGTGTGATGTTTTT
Visualization of oriT structure
oriT secondary structure
Predicted by RNAfold.
Download structure file
Relaxase
| ID | 10191 | GenBank | WP_314120979 |
| Name | traI_RN333_RS22375_pDW108-119542 |
UniProt ID | _ |
| Length | 1830 a.a. | PDB ID | |
| Note | Predicted by oriTfinder 2.0 | ||
Relaxase protein sequence
Download Length: 1830 a.a. Molecular weight: 198059.52 Da Isoelectric Point: 6.6965
>WP_314120979.1 conjugative transfer relaxase/helicase TraI [Enterobacter kobei]
MMSVAPVASAGTAAGYYSHSDNYYFLGNLQSHWLGEGARELGLDGPVRSDALTAVLEGRLPDGGRLGKEI
NGNHVHRPGHDLTFSAPKSVSILALIGGDKRMIDAHNHAVQVAAGYVEKLISARHTKDGVTSIVHTGKMV
AAAFTHDTSRNLDPLIHTHLLVANMTEYEGKWRALATDYIHNAGFIETVMKMQVTLGKIYRADLRQGVEA
LGHEVKEVGKHGMWEIKAIPDEVVEEYSSRGREVRGAVGADATLRSRDVAAKDTRRAKVDPSRIRLMERW
QAQMKEKGFDLKGYMDSVTPAESDTACPPAQIPSAADVQTRSQPDSTPEKVPVRDPIPDAGKSTERDVGR
EEPSRPVTSPTPQMQTGKYAMSPAAQAAKAAPEKPHMRAEVSDAVRQAISHLSNDKTRFTWGELMLTTTE
FSDQLPDVAEVKMAINASLKDGMIVPLDSEKGVFTSRIHLLDELSIQALSQERLKDGKVVSFARPEQYAP
RALEAVEKSPLVLMNAPTGVAGIRELTAQLTDISTAHGREVTVLASSAERATSLAKSDTLRDRLISRSHV
LSGEFSLKPQGTLIIEGAERLGLKETLVLLGEAREKDAQLVFLDSAGRQANGNAMSVLESAGVTRSRRTE
PAPGLETEVVSIADKRDRYAALASRFAELSAGSEPVTAVVLGQREQKHLTGLIRDALQNAGQLERDGVTV
EARTPVWVDNKTRRMPGTYRAGQVLEDRSDAKTTRHYVIDRIHEDTRVLSLIDSDGVLSRMKTSELTADW
RLYESENISISTGEQLIAVAGDKAAGLKAKDRLQVTGFSAGGIQVERDGLSLTLPADRPLYVKHAYVAAP
GGRDNDTGVVLAALNSRDISARTMNSLAQSGTRAEVFTAETQDRAETRLQRMNTSSSPVQLVRQLSGKDD
VSGAVSALHAGVKSEAGLAVWRAINDQRGVTFSELTLLAKAAEYHPDIGAVGEHISTMVRQGDLLPVSVR
GEPALVARATWEMEKAIIRVIDAGKDTQEPLLEQVDPRLLDGLTAGQKAAARMVLGTTDQFIGIQGYAGV
GKTTQVKAVKAAIDSLPADGRPELSGLAPTHQAVKELKDTGMPAQTVKSFLVEHDQRVNAGEKPDYRERV
FLIDESSMIGNQDTAAVYLAIQAGGGRAVSMGDIAQFEAVDAGAPFKLVQERSPMDVAIMKEIVRQKDVQ
LKGAVHDIIDNRIDAALRRIEAQPAGKIPRMAGATLPDSGIVTTEDAVGDIVRDWTERTPQARQNTLIIT
QLNADRQAVNAGIHAVLAERGELGEKSITVPVLEKISHTRHEFNKTAAWQAGMVVKRGDRYQDVVAVDKN
GSLVTVRDEDGRLGMVSPRELITGDVELFTRSAMTVNAGDELRFTATDRERGQTGNQRFTVQSVNDNGDI
VMKGAAGTKVINPAQVRAEQHIDYAWAVTGYGAQGASSEYVIALEGTEGGRKYLASQRAFYISASRAKEH
VQIYTDEKSKWVAAMKQPEKEVKTAHDALKPETQRQQAKAIWAMGQPVTKTAIGRAWARHQSMAEHSLTA
RIIPATRRFPEPALALPLYDNNGKGAGLALISLVASPEGRMTQGDIRMVGTEGASAAVLQRSQTGNTHVV
RQLSDALMAVREHPKDGVVWQTGEEKPSAHLMKVSRGVYQEEDAARIRAVSGLSTDITLPVTRENPQREA
EQLSVLQAAEALRRAAEQESAGAVVDAEKLQHGVHKPESVTLPAEESIILPAALPQANTNPLFTPDSSTL
RKLAHDLTGGTEAHIPAGMTRGENGTAPERAAAEFASASKVVNDLAAAERDMVRQPAEGERGRAIEHEEH
THTRTIQKER
MMSVAPVASAGTAAGYYSHSDNYYFLGNLQSHWLGEGARELGLDGPVRSDALTAVLEGRLPDGGRLGKEI
NGNHVHRPGHDLTFSAPKSVSILALIGGDKRMIDAHNHAVQVAAGYVEKLISARHTKDGVTSIVHTGKMV
AAAFTHDTSRNLDPLIHTHLLVANMTEYEGKWRALATDYIHNAGFIETVMKMQVTLGKIYRADLRQGVEA
LGHEVKEVGKHGMWEIKAIPDEVVEEYSSRGREVRGAVGADATLRSRDVAAKDTRRAKVDPSRIRLMERW
QAQMKEKGFDLKGYMDSVTPAESDTACPPAQIPSAADVQTRSQPDSTPEKVPVRDPIPDAGKSTERDVGR
EEPSRPVTSPTPQMQTGKYAMSPAAQAAKAAPEKPHMRAEVSDAVRQAISHLSNDKTRFTWGELMLTTTE
FSDQLPDVAEVKMAINASLKDGMIVPLDSEKGVFTSRIHLLDELSIQALSQERLKDGKVVSFARPEQYAP
RALEAVEKSPLVLMNAPTGVAGIRELTAQLTDISTAHGREVTVLASSAERATSLAKSDTLRDRLISRSHV
LSGEFSLKPQGTLIIEGAERLGLKETLVLLGEAREKDAQLVFLDSAGRQANGNAMSVLESAGVTRSRRTE
PAPGLETEVVSIADKRDRYAALASRFAELSAGSEPVTAVVLGQREQKHLTGLIRDALQNAGQLERDGVTV
EARTPVWVDNKTRRMPGTYRAGQVLEDRSDAKTTRHYVIDRIHEDTRVLSLIDSDGVLSRMKTSELTADW
RLYESENISISTGEQLIAVAGDKAAGLKAKDRLQVTGFSAGGIQVERDGLSLTLPADRPLYVKHAYVAAP
GGRDNDTGVVLAALNSRDISARTMNSLAQSGTRAEVFTAETQDRAETRLQRMNTSSSPVQLVRQLSGKDD
VSGAVSALHAGVKSEAGLAVWRAINDQRGVTFSELTLLAKAAEYHPDIGAVGEHISTMVRQGDLLPVSVR
GEPALVARATWEMEKAIIRVIDAGKDTQEPLLEQVDPRLLDGLTAGQKAAARMVLGTTDQFIGIQGYAGV
GKTTQVKAVKAAIDSLPADGRPELSGLAPTHQAVKELKDTGMPAQTVKSFLVEHDQRVNAGEKPDYRERV
FLIDESSMIGNQDTAAVYLAIQAGGGRAVSMGDIAQFEAVDAGAPFKLVQERSPMDVAIMKEIVRQKDVQ
LKGAVHDIIDNRIDAALRRIEAQPAGKIPRMAGATLPDSGIVTTEDAVGDIVRDWTERTPQARQNTLIIT
QLNADRQAVNAGIHAVLAERGELGEKSITVPVLEKISHTRHEFNKTAAWQAGMVVKRGDRYQDVVAVDKN
GSLVTVRDEDGRLGMVSPRELITGDVELFTRSAMTVNAGDELRFTATDRERGQTGNQRFTVQSVNDNGDI
VMKGAAGTKVINPAQVRAEQHIDYAWAVTGYGAQGASSEYVIALEGTEGGRKYLASQRAFYISASRAKEH
VQIYTDEKSKWVAAMKQPEKEVKTAHDALKPETQRQQAKAIWAMGQPVTKTAIGRAWARHQSMAEHSLTA
RIIPATRRFPEPALALPLYDNNGKGAGLALISLVASPEGRMTQGDIRMVGTEGASAAVLQRSQTGNTHVV
RQLSDALMAVREHPKDGVVWQTGEEKPSAHLMKVSRGVYQEEDAARIRAVSGLSTDITLPVTRENPQREA
EQLSVLQAAEALRRAAEQESAGAVVDAEKLQHGVHKPESVTLPAEESIILPAALPQANTNPLFTPDSSTL
RKLAHDLTGGTEAHIPAGMTRGENGTAPERAAAEFASASKVVNDLAAAERDMVRQPAEGERGRAIEHEEH
THTRTIQKER
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4CP
| ID | 11899 | GenBank | WP_314120982 |
| Name | traD_RN333_RS22380_pDW108-119542 |
UniProt ID | _ |
| Length | 831 a.a. | PDB ID | _ |
| Note | Predicted by oriTfinder 2.0 | ||
T4CP protein sequence
Download Length: 831 a.a. Molecular weight: 93071.40 Da Isoelectric Point: 5.1383
>WP_314120982.1 type IV conjugative transfer system coupling protein TraD [Enterobacter kobei]
MSFAGKNLTQGGQMTAYRWRMFIQVNNWIGFWVLILFVLIASSLFLWRTPQEMLDNGALYWFANLNQSFI
DLMPAGAGRFYDVHYYHAPTQTNYVLKMTLVQIYGDPYMNAMGTQVLEQLQWAALASGIFCTGVFAAISW
YISRIGKQESEDQYISGMQLTDKPADVNRLLRQNGELSDLRVGELHMVQRAEVMNYLIHGTIGVGKSTII
RWLLDYIRKRGDRAIIYDSGCTFTETHYDPRTDIILNAHDDRCANWQMWGECVDAVDYDNMAASLIPVEG
DSDPFWVSSSRTIYADLAIRMSADPDRSIEKFLKTLLSLSMQSLREYLANTPAANLVEEKIEKTAISIRS
VVTNYAKALRYLQGLDDGVKPPFTIREWMTTEKYDNSWLFISTQARHRKSVRPLISLWVSLATLMLQSMG
ENSDRRVWFIFDELPSLQRIPEFNETLAEGRKFGGCFVIGVQNMAQLVHAYGRELAKSMFDLLNTRMYGR
SPSAEMAEIVQKELGNQRKREIREQNSYGLDTVRDGISLGKDKVNNPIVDYEQIMRLPNLNFYVRLPGEY
PVVRLGLKYKKLVKRNAGLIERNIRDVLSPELEKVIKENERAATAAGLTFPTGDEVLESNNAATDTAPPV
APKPVQVKAESKPARPEAAKAEATASAKPLSAIPVSEAAPVPETAPDQSNIRDNVVVLKPLNVHKKPDTP
EREITAPAVSQPPVSTHETAGQDDLSSVTPALAVLRKFRQQAASAASNEGDEDVSGGGESMSLDMHVSEL
AEGGLELSTAGSHEPGDDHPADHRASKSLAQDEENILLHRHPDDPGYSEYDLNYDDGERDL
MSFAGKNLTQGGQMTAYRWRMFIQVNNWIGFWVLILFVLIASSLFLWRTPQEMLDNGALYWFANLNQSFI
DLMPAGAGRFYDVHYYHAPTQTNYVLKMTLVQIYGDPYMNAMGTQVLEQLQWAALASGIFCTGVFAAISW
YISRIGKQESEDQYISGMQLTDKPADVNRLLRQNGELSDLRVGELHMVQRAEVMNYLIHGTIGVGKSTII
RWLLDYIRKRGDRAIIYDSGCTFTETHYDPRTDIILNAHDDRCANWQMWGECVDAVDYDNMAASLIPVEG
DSDPFWVSSSRTIYADLAIRMSADPDRSIEKFLKTLLSLSMQSLREYLANTPAANLVEEKIEKTAISIRS
VVTNYAKALRYLQGLDDGVKPPFTIREWMTTEKYDNSWLFISTQARHRKSVRPLISLWVSLATLMLQSMG
ENSDRRVWFIFDELPSLQRIPEFNETLAEGRKFGGCFVIGVQNMAQLVHAYGRELAKSMFDLLNTRMYGR
SPSAEMAEIVQKELGNQRKREIREQNSYGLDTVRDGISLGKDKVNNPIVDYEQIMRLPNLNFYVRLPGEY
PVVRLGLKYKKLVKRNAGLIERNIRDVLSPELEKVIKENERAATAAGLTFPTGDEVLESNNAATDTAPPV
APKPVQVKAESKPARPEAAKAEATASAKPLSAIPVSEAAPVPETAPDQSNIRDNVVVLKPLNVHKKPDTP
EREITAPAVSQPPVSTHETAGQDDLSSVTPALAVLRKFRQQAASAASNEGDEDVSGGGESMSLDMHVSEL
AEGGLELSTAGSHEPGDDHPADHRASKSLAQDEENILLHRHPDDPGYSEYDLNYDDGERDL
Protein domains
Predicted by InterproScan.
Protein structure
No available structure.
T4SS
T4SS were predicted by using oriTfinder2.
Region 1: 83864..106937
| Locus tag | Coordinates | Strand | Size (bp) | Protein ID | Product | Description |
|---|---|---|---|---|---|---|
| RN333_RS22380 (RN333_22380) | 83864..86359 | - | 2496 | WP_314120982 | type IV conjugative transfer system coupling protein TraD | virb4 |
| RN333_RS22385 (RN333_22385) | 86507..86878 | - | 372 | WP_314120984 | hypothetical protein | - |
| RN333_RS22390 (RN333_22390) | 87094..87825 | - | 732 | WP_088222284 | complement resistance protein TraT | - |
| RN333_RS22395 (RN333_22395) | 87970..88542 | - | 573 | WP_314120986 | hypothetical protein | - |
| RN333_RS22400 (RN333_22400) | 88555..91770 | - | 3216 | WP_314120988 | conjugal transfer mating-pair stabilization protein TraG | traG |
| RN333_RS22405 (RN333_22405) | 91810..93174 | - | 1365 | WP_314120990 | conjugal transfer pilus assembly protein TraH | traH |
| RN333_RS22410 (RN333_22410) | 93167..93436 | - | 270 | WP_254915067 | hypothetical protein | - |
| RN333_RS22415 (RN333_22415) | 93451..94050 | - | 600 | WP_314120992 | F-type conjugal transfer protein TrbB | traF |
| RN333_RS22420 (RN333_22420) | 94040..94264 | - | 225 | WP_140419641 | hypothetical protein | - |
| RN333_RS22425 (RN333_22425) | 94352..95134 | - | 783 | WP_314121261 | type-F conjugative transfer system pilin assembly protein TraF | traF |
| RN333_RS22430 (RN333_22430) | 95134..96954 | - | 1821 | WP_314120995 | type-F conjugative transfer system mating-pair stabilization protein TraN | traN |
| RN333_RS22435 (RN333_22435) | 96951..97568 | - | 618 | WP_314120997 | type-F conjugative transfer system pilin assembly protein TrbC | trbC |
| RN333_RS22440 (RN333_22440) | 97576..98580 | - | 1005 | WP_088222293 | conjugal transfer pilus assembly protein TraU | traU |
| RN333_RS22445 (RN333_22445) | 98565..98906 | - | 342 | WP_129364012 | hypothetical protein | - |
| RN333_RS22450 (RN333_22450) | 98974..99183 | - | 210 | WP_129364011 | hypothetical protein | - |
| RN333_RS22455 (RN333_22455) | 99335..99616 | - | 282 | WP_314121001 | hypothetical protein | - |
| RN333_RS22460 (RN333_22460) | 99676..100311 | - | 636 | WP_314121003 | type-F conjugative transfer system protein TraW | traW |
| RN333_RS22465 (RN333_22465) | 100308..100718 | - | 411 | WP_314121006 | type-F conjugative transfer system protein TrbI | - |
| RN333_RS22470 (RN333_22470) | 100715..103324 | - | 2610 | WP_088222298 | type IV secretion system protein TraC | virb4 |
| RN333_RS22475 (RN333_22475) | 103324..103869 | - | 546 | WP_314121009 | type IV conjugative transfer system lipoprotein TraV | traV |
| RN333_RS22480 (RN333_22480) | 103909..105300 | - | 1392 | WP_314121011 | F-type conjugal transfer pilus assembly protein TraB | traB |
| RN333_RS22485 (RN333_22485) | 105297..106037 | - | 741 | WP_088222301 | type-F conjugative transfer system secretin TraK | traK |
| RN333_RS22490 (RN333_22490) | 106050..106631 | - | 582 | WP_088222302 | TraE/TraK family type IV conjugative transfer system protein | traE |
| RN333_RS22495 (RN333_22495) | 106635..106937 | - | 303 | WP_314121015 | type IV conjugative transfer system protein TraL | traL |
| RN333_RS22500 (RN333_22500) | 106940..107287 | - | 348 | WP_129364003 | type IV conjugative transfer system pilin TraA | - |
| RN333_RS22505 (RN333_22505) | 107483..108115 | + | 633 | WP_314121017 | Arc family DNA-binding protein | - |
| RN333_RS22510 (RN333_22510) | 108155..108547 | - | 393 | WP_088222306 | relaxosome protein TraM | - |
| RN333_RS22515 (RN333_22515) | 109174..109698 | + | 525 | WP_314121262 | lytic transglycosylase domain-containing protein | - |
| RN333_RS22520 (RN333_22520) | 109734..110555 | - | 822 | WP_314121020 | DUF932 domain-containing protein | - |
| RN333_RS22525 (RN333_22525) | 110615..111031 | - | 417 | WP_314121022 | hypothetical protein | - |
| RN333_RS22530 (RN333_22530) | 111588..111815 | - | 228 | WP_314121024 | hypothetical protein | - |
Host bacterium
| ID | 16354 | GenBank | NZ_CP135148 |
| Plasmid name | pDW108-119542 | Incompatibility group | - |
| Plasmid size | 119542 bp | Coordinate of oriT [Strand] | 108924..108978 [+] |
| Host baterium | Enterobacter kobei strain DW108 |
Cargo genes
| Drug resistance gene | - |
| Virulence gene | - |
| Metal resistance gene | arsH, arsR, arsB, arsC, silE, silS, silR, silC, silF, silB, silA, silP, pcoA, pcoB, pcoC, pcoD, pcoR, pcoS, pcoE |
| Degradation gene | - |
| Symbiosis gene | - |
| Anti-CRISPR | - |