Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   106913
Name   oriT_p1_045523 in_silico
Organism   Enterobacter kobei strain WCHEK045523
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP032893 (135986..136088 [-], 103 nt)
oriT length   103 nt
IRs (inverted repeats)      89..94, 96..101  (AAATAA..TTATTT)
 28..33, 40..45  (GCAAAA..TTTTGC)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 103 nt

>oriT_p1_045523
CTCACCACCAAAAGCTCCACACCCCACGCAAAATTAAAGTTTTGCTGATTGGGTATTCAAATCATGCAGTTAGTGAAAAAGTAATGTGAAATAATTTATTTTA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   4570 GenBank   WP_023307204
Name   traI_D9T11_RS00590_p1_045523 insolico UniProt ID   A0A1Q1PS85
Length   1746 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1746 a.a.        Molecular weight: 189264.44 Da        Isoelectric Point: 6.1121

>WP_023307204.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Enterobacterales]
MMSIGSVKSAGSAGNYYTDKDNYYVIGSMGERWAGKGAEALGLSGGVDQKVFTKVLEGRLPDGSDLSRTQ
DGANKHRPGYDFTFSAPKSVSVMAMLGGDKRLIEAHNRAVETAIKQIEAMASTRVMTEGRSETQLTGNLV
MALFNHDTSRDQEPQLHTHAVVANATQHGDEWRTLSSDKVGKTGFIENIYANQIAFGRLYRAALKDDVAA
MGYETETVGKHGMWELKGVPTEPYSSRSRTISEAVGDDASLKSRDVAALDTRQSKQKVDPEQRMAEWMHT
LKETGFDIKAYREAADLRVVQGNIPATTPEAIDINSSVGQAIAMLSDRRARFTYSELLATTLGQLPARSG
MVEMARDGIDAAIKNEQLIPLDKEKGLFTSNIHVLDELSVSAMTRDLQRTGQADIFPDKSVPRSRSYSDA
VSVLAQDRPPVAIISGQGGAAGQRERVAELTMMAREQGRDVQIIAADRRSRSALMQDERLSGEHITDRRG
LTEGMAFTPGSTLIVDQGEKLTLKETLTLLDGALRHNVQLLIADSGQRTGTGSALTVMKEAGVSTLAWQG
GEKTQVSVISEPDRRQRYDRLAADFARSVRAGEHSVAQVTGPREQAVLAGVVREALKAEKVLGEREVSIT
TLEPVWLDSRHQQVRDHYREGMVMERWNAEERSRERFVIDRVTGRNNSLTLRNAQGETRVTRLSELNSSW
SLYRTGTLQVAEGDRLAVLGQAQGTRLRGGDTVTVKALGEAGLVVSLPGRKADVVLPAGDSPFTAAKVVQ
GWVESPGRSVSDSATVFASLSQRELDNTTLNKLALSGRAVRLYSAQTAQKTTEKLSRQSAWSVVSEQIKD
AAGHDRLDDALAHQKAGLHTPEQQAIHLAIPVLEGNGLAFTKPQLMAAAKEFEQDSLSLQAIEKEADRQV
RSGDLLSVPVSPGNGLQLLVSRQSYNAEKSIIRHVLEGKEAVTPLMDKVPDAQLAGLTDGQRNATRMILE
SPDRFTLVQGYAGVGKTTQFRAVMSAIGTLPEREQPRVIGVAPTHRAVSEMRDAGVPETQTLAAFIHDTQ
QQLRGGERTDFSNVLFLVDESSMVGNADMAKAYSLIAGGGGRAVSSGDTDQLQSIAPGQPFRLLQKRSAI
DVAVMQEIVRQTPELKPAVYSLISRDIGSALTTIESVAPAQVPRRADAWQPDSSVMEFSREREEAIAKAV
AAGDLMPGGQPATLLEAIVKDYTGRTSEAQAQTIVITALNADRRQVNAMIHDARQGAGEVGEKEVTLPVL
TPANIRDGELRRMATWEASRDSLVLLDSTYYSIEALDGEAHLVMLKDAQGNTRSLSPAQAATEGVTLYRQ
DTITVSEGDRMRFSKSDNERGFVANSVWSVSEIKGDSVTLSDGKQTRTLTPSAEQAEQHIDLAYAVTVEG
SQGASEPFSISLQGTDGGRKRMVSFESAYVALSRMKQHAQVYTDNRDKWVAAMEKSQAKSTAHDILEPRG
DRAVANAARLTATAKALGEVPAGRAALRQAGLQPEGSMAKYISPGRKYPQPHVALPAFDRNGRKAGVWLS
ALTSGDGQLKGLAGEGRVMGSGDAAFAGLQASRNGESLLARDMEEGVRLARENPQSGVVVRLEGEARPWN
PGAITGGRVWADGLPDATGTQPAETVPPEVLAQQAREAEVQRELDKRAEEAVREMARSGDRPAGGADVAV
RDVVRDMDRIKETPASPLTLPDAPEERRRDEAVSQVVRESVQRDRLQQMERETVRDLEREKTLGGD

  Protein domains


Predicted by InterproScan.

DNA relaxase TraI 2B/2B-like domain (TraI_2B)

(631-710)

single-stranded DNA binding TraI N-terminal subdomain (ssDNA_TraI_N)

(573-625)

AAA domain (AAA_30)

(967-1150)

TrwC relaxase (TrwC)

(10-283)

DNA helicase TraI (TraI_C)

(1430-1551)


  Protein structure



No available structure.




T4CP

ID   4655 GenBank   WP_008324910
Name   traD_D9T11_RS00595_p1_045523 insolico UniProt ID   _
Length   730 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 730 a.a.        Molecular weight: 81859.42 Da        Isoelectric Point: 5.1609

>WP_008324910.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Enterobacteriaceae]
MSFNAKDMTQGGQIASMRIRMFSQIANIIVYCLVILFGIIVAITLSVKLTWQTFVNGMVYYWCQTLAPMR
DIFKSQPVYTIRYYGHELKYNAQQILQDKYIQWCADQVWTAFILAAIIAAVVCVITFFVTTWILGHQGKQ
QSEDEITGGRQLTDDPKAVAKMLRRDGLASDIKIGELPLIKDSEIQNFCLHGTVGAGKSEVIRRLMNYAR
QRGDMVIVYDRSCEFVKSYYDPATDKILNPLDARCAAWDLWRECLTQPDFDNVSNTLIPMGTKEDPFWQG
SGRTIFAEAAYLMRNDKDRSYSKLVDTLLSIKIEKLRSYLKNSPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIENNGESFTIRDWMRGVREDGKNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVIGIQSYAQLEDIYGQKPAETLFDVLNTRAFFRSPSRNIA
EFAAGEIGEKEILKASEQYSYGVDPVRDGTSVGKDMERVTLVSYSDVQTLPDLSCYVTLPGPYPAVKMAL
KYQQRPKVAPEFIPRTIDGKAEERLNAALAAREHESRSIAMLFEPDADVVAPEGGAENVGQPQQPQQPQQ
PQQPQQPQQLTPAPRAADAASVAGAAGAGGVEPELKTKAEEAEQLPPGISESGEVVDMAAWEAWQAEQDE
LSPQERQRREEVNINVHRAPEKDLEPGGYI

  Protein domains


Predicted by InterproScan.

Type IV secretion-system coupling protein DNA-binding domain (TrwB_AAD_bind)

(172-560)

F sex factor protein N terminal (TraD_N)

(32-128)

  Protein structure



No available structure.



ID   4656 GenBank   WP_008324134
Name   traC_D9T11_RS00670_p1_045523 insolico UniProt ID   _
Length   876 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 876 a.a.        Molecular weight: 98841.51 Da        Isoelectric Point: 5.7676

>WP_008324134.1 MULTISPECIES: type IV secretion system protein TraC [Enterobacterales]
MSNPLDSVTRTVNSLLTALKMPDASSEANDVLGQMRFPQFSRVLPYRDYDAETGLFMNEKTMGFMLEAQP
INGANETIVSSLENLMRTKLPREVPVAVHLVSSHLVGQDIEYGLRELSWTGEKADTFNAITRAYYLRAAE
EGFPLPDHLNLPLTLRNYRVYISCCVPRKRGSKASVMEMENQVKIIRASLQGAQIATRSVDADAFIRIAG
EMINHNPDALYPTERELDPLKDLNYQCVDDTFDLKVKADYMTLGLRGNGRNSTARIMNFQLTKNPELAFL
WNMADNYSNLLNPELSVSCPFILTLVLSVEDQVKAQNEANLKFMDLEKKSKTSYAKFFPGVAQEAKEWGD
LRQRLSSGQSSLVSYFLNVTLFCRDDQETALKVEQDVLNSFRKNGFELISPRFNHMRNFLVNLPFMAGGG
LFKQLRESGVLQRAESFNVANLMPVVADSPLATSGLLAPTYRNQLAFIDLFSRGMGNTNFNMAVCGTSGA
GKTGLIQPLIRSVIDSGGFAVVFDMGDGYKSLCENMGGVYLDGETLKFNPFANVTDDTIDEMAERLRDQL
SVMASPNGNLDEVHEGLLLKAVKATWLTKKNQARIDDVVDYLMMARDSEEYSGSPTIRSRLDEMVVLLTQ
YTRDGVYGSYFNSDEPSLKDEARMVVLELGGLEDRPSLLVAVMFSLILYIENRMYRTPRSLKKLNVIDEG
WRLLDFKNNKVGAFIEKGYRTARRHTGSYITITQNIVDFDSETASSAARAAWGNSSYKIILKQSAKEFAK
YNQLYPDQYSQLQRDMIKGFGSAKDNWFSSFMLSVEHLTSWHRLFVDPLSRAMYSSDGPDFEFLQQRRRE
GLSIHEAVWELAWKKSGPEMAALERWLHEHEGKTIS

  Protein domains


Predicted by InterproScan.

Family of unknown function (DUF5934) (DUF5934)

(289-446)

TraG P-loop domain (P-loop_TraG)

(470-765)

TraC protein (TraC_F_IV)

(38-276)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 111520..136636

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
D9T11_RS00595 (D9T11_00595) 111520..113712 - 2193 WP_008324910 type IV conjugative transfer system coupling protein TraD virb4
D9T11_RS00600 (D9T11_00600) 113846..114520 - 675 WP_008324909 tetratricopeptide repeat protein -
D9T11_RS00605 (D9T11_00605) 114595..115026 - 432 WP_008324118 entry exclusion protein -
D9T11_RS00610 (D9T11_00610) 115048..117870 - 2823 WP_008324119 conjugal transfer mating-pair stabilization protein TraG traG
D9T11_RS00615 (D9T11_00615) 117870..119240 - 1371 WP_016247527 conjugal transfer pilus assembly protein TraH traH
D9T11_RS00620 (D9T11_00620) 119227..119655 - 429 WP_008324122 hypothetical protein -
D9T11_RS00625 (D9T11_00625) 119648..120202 - 555 WP_008324125 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
D9T11_RS00630 (D9T11_00630) 120192..120440 - 249 WP_008324126 type-F conjugative transfer system pilin chaperone TraQ -
D9T11_RS00635 (D9T11_00635) 120457..121206 - 750 WP_008324127 type-F conjugative transfer system pilin assembly protein TraF traF
D9T11_RS00640 (D9T11_00640) 121237..121425 - 189 WP_008324128 conjugal transfer protein TrbE -
D9T11_RS00645 (D9T11_00645) 121457..123310 - 1854 WP_022652255 type-F conjugative transfer system mating-pair stabilization protein TraN traN
D9T11_RS00650 (D9T11_00650) 123307..123936 - 630 WP_008324130 type-F conjugative transfer system pilin assembly protein TrbC trbC
D9T11_RS00655 (D9T11_00655) 123953..124939 - 987 WP_032160671 conjugal transfer pilus assembly protein TraU traU
D9T11_RS00660 (D9T11_00660) 124942..125589 - 648 WP_008324132 type-F conjugative transfer system protein TraW traW
D9T11_RS00665 (D9T11_00665) 125589..125936 - 348 WP_008324133 type-F conjugative transfer system protein TrbI -
D9T11_RS00670 (D9T11_00670) 125933..128563 - 2631 WP_008324134 type IV secretion system protein TraC virb4
D9T11_RS00675 (D9T11_00675) 128556..129122 - 567 WP_008324135 conjugal transfer pilus-stabilizing protein TraP -
D9T11_RS00680 (D9T11_00680) 129112..129513 - 402 WP_008324137 hypothetical protein -
D9T11_RS00685 (D9T11_00685) 129497..129682 - 186 WP_008324139 hypothetical protein -
D9T11_RS00690 (D9T11_00690) 129686..129910 - 225 WP_008324141 TraR/DksA C4-type zinc finger protein -
D9T11_RS00695 (D9T11_00695) 130030..130569 - 540 WP_008324154 type IV conjugative transfer system lipoprotein TraV traV
D9T11_RS00700 (D9T11_00700) 130591..131985 - 1395 WP_008324156 F-type conjugal transfer pilus assembly protein TraB traB
D9T11_RS00705 (D9T11_00705) 131972..132715 - 744 WP_008324157 type-F conjugative transfer system secretin TraK traK
D9T11_RS00710 (D9T11_00710) 132702..133268 - 567 WP_008324158 type IV conjugative transfer system protein TraE traE
D9T11_RS00715 (D9T11_00715) 133283..133588 - 306 WP_008324160 type IV conjugative transfer system protein TraL traL
D9T11_RS00720 (D9T11_00720) 133739..134089 - 351 WP_008324162 type IV conjugative transfer system pilin TraA -
D9T11_RS00725 (D9T11_00725) 134147..134371 - 225 WP_008324165 TraY domain-containing protein -
D9T11_RS00730 (D9T11_00730) 134458..135147 - 690 WP_008324166 hypothetical protein -
D9T11_RS00735 (D9T11_00735) 135336..135728 - 393 WP_008324167 conjugal transfer relaxosome DNA-binding protein TraM -
D9T11_RS00740 (D9T11_00740) 136160..136636 + 477 WP_008324168 transglycosylase SLT domain-containing protein virB1
D9T11_RS00745 (D9T11_00745) 136683..137213 - 531 WP_008324170 antirestriction protein -
D9T11_RS00750 (D9T11_00750) 137840..138670 - 831 WP_008324171 N-6 DNA methylase -
D9T11_RS00755 (D9T11_00755) 138713..138976 - 264 WP_008324174 hypothetical protein -
D9T11_RS00760 (D9T11_00760) 139062..139406 - 345 WP_008324177 hypothetical protein -
D9T11_RS00765 (D9T11_00765) 139453..139740 - 288 WP_008324178 hypothetical protein -
D9T11_RS00770 (D9T11_00770) 139794..140168 - 375 WP_008324180 hypothetical protein -
D9T11_RS00775 (D9T11_00775) 140795..141154 - 360 WP_008324181 hypothetical protein -
D9T11_RS00780 (D9T11_00780) 141216..141539 - 324 WP_008324183 hypothetical protein -

Host bacterium

ID   7350 GenBank   NZ_CP032893
Plasmid name   p1_045523 Incompatibility group   IncFIB
Plasmid size   156442 bp Coordinate of oriT [Strand]   135986..136088 [-]
Host baterium   Enterobacter kobei strain WCHEK045523

Cargo genes

Drug resistance gene   mcr-9, aadA2, qacE, sul1
Virulence gene   -
Metal resistance gene   rcnR/yohL, ncrC, pcoE, pcoS, silP, silA, silB, silF, silC, silR, silS, silE
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -