Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   105642
Name   oriT_Eh1|p2 in_silico
Organism   Enterobacter hormaechei subsp. hoffmannii strain Eh1
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP034756 (58308..58410 [-], 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_Eh1|p2
CTCACCACCAAAAGTTCCACACCCCACGCAAAATTAAAGTTTTGCTGATTGGGTATTCAAATCATGCAGTTAGTGAAAAAGTAATGTGAAATAATTTATTTTA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   3827 GenBank   WP_016479978
Name   traI_EM861_RS24345_Eh1|p2 insolico UniProt ID   A0A0G3B767
Length   1746 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1746 a.a.        Molecular weight: 189285.41 Da        Isoelectric Point: 6.0099

>WP_016479978.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Enterobacterales]
MMSIGSVKSAGSAGNYYTDKDNYYVIGSMGERWAGKGAEALGLSGGVDQKVFTKVLEGRLPDGSDLSRTQ
DGANKHRPGYDFTFSAPKSVSVMAMLGDDKRLIEAHNRAVETAIKQIEAMASTRVMTEGRSETQLTGNLV
MALFNHDTSRDQEPQLHTHAVVANATQHGDEWRTLSSDKVGKTGFIENIYANQIAFGRLYRAALKDDVAA
MGYETETVGKHGMWELKGVPTEPYSSRSRTISEAVGDDASLKSRDVAALDTRQSKQKVDPEQRMAEWMQT
LKETGFDIKAYREAADLRVVQGNIPATTPEAIDINSSVGQAIAMLSDRRARFTYSELLATTLGQLPARSG
MVEMARDGIDAAIKNEQLIPLDKEKGLFTSNIHVLDELSVSAMTRDLQRTGQADIFPDKSVPRSRSYSDA
VSVLAQDRPPVAIISGQGGAAGQRERVAELTMMAREQGRDVQIIAADRRSRSALMQDERLSGEHITDRRG
LTEGMAFTPGSTLIVDQGEKLTLKETLTLLDGALRHNVQLLIADSGQRTGTGSALTVMKEAGVSTLAWQG
GEKTQVSVISEPDRRQRYDRLAADFARSVRAGEHSVAQVTGPREQAVLAGVVREALKAEKVLGEREVSIT
TLEPVWLDSRHQQVRDHYREGMVMERWNAEERSRERFVIDRVTGRNNSLTLRNAQGETRVTRLSELNSSW
SLYRTGTLQVAEGDRLAVLGQAQGTRLRGGDTVTVKALGEAGLVVSLPGRKADVVLPAGDSPFTAAKVVQ
GWVESPGRSVSDSATVFASLSQRELDNTTLNKLALSGRAVRLYSAQTAQKTTEKLSRQSAWSVVSEQIKD
AAGHDRLDDALAHQKAGLHTPEQQAIHLAIPVLEGNGLAFTKPQLMAAAKEFEQDSLSLQAIEKEADRQV
RSGDLLSVPVSPGNGLQLLVSRQSYNAEKSIIRHVLEGKEAVTPLMDKVPDAQLAGLTDGQRNATRMILE
SPDRFTLVQGYAGVGKTTQFRAVMSAIGTLPEREQPRVIGVAPTHRAVSEMRDAGVPETQTLAAFIHDTQ
QQLRGGERTDFSNVLFLVDESSMVGNADMAKAYSLIAGGGGRAVSSGDTDQLQSIAPGQPFRLLQKRSAI
DVAVMQEIVRQTPELKPAVYSLISRDIGSALTTIESVAPAQVPRRADAWQPDSSVMEFSREREEAIAKAV
AAGDLMPGGQPATLLEAIVKDYTGRTSEAQAQTIVITALNADRRQVNAMIHDARQGAGEVGEKEVTLPVL
TPANIRDGELRRMATWEASRDSLVLLDSTYYSIEALDGEAHLVMLKDAQGNTRSLSPAQAATEGVTLYRQ
DTITVSEGDRMRFSKSDNERGFVANSVWSVSEIKGDSVTLSDGKQTRTLTPSAEQAEQHIDLAYAVTVEG
SQGASEPFSISLQGTDGGRKRMVSFESAYVALSRMKQHAQVYTDNRDKWAAAMEKSQAKSTAHDILEPRG
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)

TrwC relaxase (TrwC)

(10-283)

DNA helicase TraI (TraI_C)

(1430-1551)

AAA domain (AAA_30)

(967-1150)


  Protein structure



No available structure.




T4CP

ID   3834 GenBank   WP_159115395
Name   traD_EM861_RS24350_Eh1|p2 insolico UniProt ID   _
Length   736 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 736 a.a.        Molecular weight: 82538.12 Da        Isoelectric Point: 5.1609

>WP_159115395.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Enterobacteriaceae]
MSFNAKDMTQGGQIASMRIRMFSQIANIIVYCLVILFGIIVAITLSVKLTWQTFVNGMVYYWCQTLAPMR
DIFKSQPVYTIRYYGHELKYNAQQILQDKYIQWCADQVWTAFILAAIIAAVVCVITFFVTTWILGHQGKQ
QSEDEITGGRQLTDDPKAVAKMLRRDGLASDIKIGELPLIKDSEIQNFCLHGTVGAGKSEVIRRLMNYAR
QRGDMVIVYDRSCEFVKSYYDPATDKILNPLDARCAAWDLWRECLTQPDFDNVSNTLIPMGTKEDPFWQG
SGRTIFAEAAYLMRNDKDRSYSKLVDTLLSIKIEKLRSYLKNSPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIENNGESFTIRDWMRGVREDGKNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVIGIQSYAQLEDIYGQKPAETLFDVLNTRAFFRSPSRNIA
EFAAGEIGEKEILKASEQYSYGVDPVRDGTSVGKDMERVTLVSYSDVQTLPDLSCYVTLPGPYPAVKMAL
KYQQRPKVAPEFIPRTIDGKAEERLNAALAAREHESRSIAMLFEPDADVVAPEGGAENAGQPQQPQQPQQ
PQQPQQPQQPQQPQQLTPAPRAADAASVAGAAGAGGVEPELKTKAEEAEQLPPGISESGEVVDMAAWEAW
QAEQDELSPQERQRREEVNINVHRAPEKDLEPGGYI

  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   3835 GenBank   WP_008324134
Name   traC_EM861_RS24425_Eh1|p2 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: 33824..58958

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
EM861_RS24350 (EM861_24765) 33824..36034 - 2211 WP_159115395 type IV conjugative transfer system coupling protein TraD virb4
EM861_RS24355 (EM861_24770) 36168..36842 - 675 WP_008324909 tetratricopeptide repeat protein -
EM861_RS24360 (EM861_24775) 36917..37348 - 432 WP_008324118 entry exclusion protein -
EM861_RS24365 (EM861_24780) 37370..40192 - 2823 WP_159115396 conjugal transfer mating-pair stabilization protein TraG traG
EM861_RS24370 (EM861_24785) 40192..41562 - 1371 WP_016247527 conjugal transfer pilus assembly protein TraH traH
EM861_RS24375 (EM861_24790) 41549..41977 - 429 WP_008324122 hypothetical protein -
EM861_RS24380 (EM861_24795) 41970..42524 - 555 WP_008324125 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
EM861_RS24385 (EM861_24800) 42514..42762 - 249 WP_016479982 type-F conjugative transfer system pilin chaperone TraQ -
EM861_RS24390 (EM861_24805) 42779..43528 - 750 WP_008324127 type-F conjugative transfer system pilin assembly protein TraF traF
EM861_RS24395 (EM861_24810) 43559..43747 - 189 WP_008324128 conjugal transfer protein TrbE -
EM861_RS24400 (EM861_24815) 43779..45632 - 1854 WP_016479983 type-F conjugative transfer system mating-pair stabilization protein TraN traN
EM861_RS24405 (EM861_24820) 45629..46258 - 630 WP_008324130 type-F conjugative transfer system pilin assembly protein TrbC trbC
EM861_RS24410 (EM861_24825) 46275..47261 - 987 WP_042934586 conjugal transfer pilus assembly protein TraU traU
EM861_RS24415 (EM861_24830) 47264..47911 - 648 WP_008324132 type-F conjugative transfer system protein TraW traW
EM861_RS24420 (EM861_24835) 47911..48258 - 348 WP_008324133 type-F conjugative transfer system protein TrbI -
EM861_RS24425 (EM861_24840) 48255..50885 - 2631 WP_008324134 type IV secretion system protein TraC virb4
EM861_RS24430 (EM861_24845) 50878..51444 - 567 WP_008324135 conjugal transfer pilus-stabilizing protein TraP -
EM861_RS24435 (EM861_24850) 51434..51835 - 402 WP_016479985 hypothetical protein -
EM861_RS24440 (EM861_24855) 51819..52004 - 186 WP_008324139 hypothetical protein -
EM861_RS24445 (EM861_24860) 52008..52232 - 225 WP_008324141 TraR/DksA C4-type zinc finger protein -
EM861_RS24450 (EM861_24865) 52352..52891 - 540 WP_016247533 type IV conjugative transfer system lipoprotein TraV traV
EM861_RS24455 (EM861_24870) 52913..54307 - 1395 WP_016479986 F-type conjugal transfer pilus assembly protein TraB traB
EM861_RS24460 (EM861_24875) 54294..55037 - 744 WP_008324157 type-F conjugative transfer system secretin TraK traK
EM861_RS24465 (EM861_24880) 55024..55590 - 567 WP_016247535 type IV conjugative transfer system protein TraE traE
EM861_RS24470 (EM861_24885) 55605..55910 - 306 WP_008324160 type IV conjugative transfer system protein TraL traL
EM861_RS24475 (EM861_24890) 56061..56411 - 351 WP_016247536 type IV conjugative transfer system pilin TraA -
EM861_RS24480 (EM861_24895) 56469..56693 - 225 WP_008324165 TraY domain-containing protein -
EM861_RS24485 (EM861_24900) 56780..57469 - 690 WP_008324166 hypothetical protein -
EM861_RS24490 (EM861_24905) 57658..58050 - 393 WP_008324167 conjugal transfer relaxosome DNA-binding protein TraM -
EM861_RS24495 (EM861_24910) 58482..58958 + 477 WP_008324168 transglycosylase SLT domain-containing protein virB1
EM861_RS24500 (EM861_24915) 59005..59535 - 531 WP_008324170 antirestriction protein -
EM861_RS24505 (EM861_24920) 60162..60992 - 831 WP_008324171 N-6 DNA methylase -
EM861_RS24510 (EM861_24925) 61035..61298 - 264 WP_008324174 hypothetical protein -
EM861_RS24515 (EM861_24930) 61384..61728 - 345 WP_008324177 hypothetical protein -
EM861_RS24520 (EM861_24935) 61775..62062 - 288 WP_008324178 hypothetical protein -
EM861_RS24525 (EM861_24940) 62116..62490 - 375 WP_008324180 hypothetical protein -
EM861_RS24530 (EM861_24945) 63117..63476 - 360 WP_015493069 hypothetical protein -
EM861_RS24535 (EM861_24950) 63538..63861 - 324 WP_008324183 hypothetical protein -

Host bacterium

ID   6079 GenBank   NZ_CP034756
Plasmid name   Eh1|p2 Incompatibility group   IncFIB
Plasmid size   108486 bp Coordinate of oriT [Strand]   58308..58410 [-]
Host baterium   Enterobacter hormaechei subsp. hoffmannii strain Eh1

Cargo genes

Drug resistance gene   blaNDM-1, sul1, rmtC
Virulence gene   htpB
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -