Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   116118
Name   oriT_2022CK-00409|unnamed1 in_silico
Organism   Enterobacter cloacae strain 2022CK-00409
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP104837 (49539..49641 [+], 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_2022CK-00409|unnamed1
CTCACCACCAAAAGCTCCACACCCCACGCAAAATTAAAGTTTTGCTGATTGGGTATTCAAATCATGCAGTTAGTGAAAAAGTAATGTGAAATAATTTATTTTA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   10305 GenBank   WP_032637308
Name   traI_N7S94_RS24530_2022CK-00409|unnamed1 insolico UniProt ID   A0A7W3DJK7
Length   1746 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1746 a.a.        Molecular weight: 189305.44 Da        Isoelectric Point: 5.8900

>WP_032637308.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Enterobacterales]
MMSIGSVKSAGSAGNYYTDKDNYYVIGSMGERWAGKGAEALGLSGGVDQKVFTKVLEGRLPDGSDLSRTQ
DGANKHRPGYDFTFSAPKSVSVMAMLGGDKRLIEAHNRAVETAIKQIEAMASTRVMTEGRSETQLTGNLV
MALFNHDTSRDQEPQLHTHAVVANATQHGDEWRTLSSDKVGKTGFIENIYANQIAFGRLYRAALKDDVAA
MGYETETVGKHGMWELKGVPTEPYSSRSRTISEAVGDDASLKSRDVAALDTRQSKQRVDPEQRMVEWMQT
LKETGFDIKAYREAADLRVVQGNIPATTPEAIDINSSVGQAIAMLSDRRARFTYSELLATTLGQLPARSG
MVEMARDGIDAAIKNEQLIPLDKEKGLFTSNIHVLDELSVSAMTRDLQRTGQADIFPDKSVPRSRSYSDA
VSVLAQDRPPVAIISGQGGAAGQRERVAELTMMAREQGRDVQIIAADRRSRSALMQDERLSGEHITDRRE
LTEGMTFTPGSTLIVDQGEKLTLKETLTLLDGALRHNVQLLIADSGQRTGTGSALTVMKEAGVSTLAWQG
GEKTQVSVISEPDRRQRYDRLAADFARSIRAGEHSVAQVSGPREQAVLAGAVREALKAEKVLGEREVSIT
TLEPVWLDSRHQQVRDHYREGMVMERWNAEARSRERFVIDRVTGRNNSLTLRNAQGETRVTRLSELNSSW
SLYRTGTLQVAEGDRLAVLGQAQGTRLKGGDTVTVKALGEAGLVVSLPGRKADVVLPAGDSPFTAAKVGQ
GWVESPGRSVSDSATVFASLSQRELDNTTLNKLALSGRAVQLYSAQTAQKTTEKLSRQSAWSVVSEQIKD
AAGHDRLDDALAHQKAGLHTPEQQAIHLAIPVLEGNGLAFTKPQLMAAAKEFEQDSLSLQAIEKEADRQV
RSGALLSVPVSPGNGLQLLVSRQSYNAEKSIIRHVLEGKEAVTPLMDKVPDAQLAGLTDGQRNATRMILE
SPDRFTLVQGYAGVGKTTQFRAVMSAIGTLPEREQPRVIGVAPTHRAVSEMRDAGVPETQTLAAFIHDTQ
QQLRGGERPDFSNVLFLVDESSMVGNADMAKAYSLIAGGGGRAVSSGDTDQLQSIAPGQPFRLLQKRSAI
DVAVMQEIVRQTPELKPAVYSLINRDIGSALTTIERVAPAQVPRRADAWQPDSSVMEFSREREEAIAKAM
AAGDLLPGGEPATLLEAIVKDYTGRTPEAQAQTIVITALNADRRQVNAMIHDARQDAGEVGEKEVTLPVL
TPANIRDGELRRMATWEASRDSLVLLDSTYYSIEALDGEAHLVTLKDTQGNTRSLSPAQAATEGVTLYRQ
DTITVSEGDRMRFSKSDNERGFVANSVWSVSEIKGDGVTLSDGKQTRTLTPSAEQAEQHIDLAYAVTVEG
SQGASEPFSISLQGTDGGRKRMVSFESAYVALSRMKQHAQVYTDNRDKWMAAMEKSQAKSTAHDILEPRG
DRAVANAARLTATAKALGEVPAGRAALRQAGLQPEGSMAKFISPGRKYPQPHVALPAFDRNGRLAGVWLS
ALTSGDGQLKGLAGEGRVMGSGDAAFAGLQASRNGESLLARDMEEGVRLARENPQSGVVVRLEGEARPWN
PGAITGGRVWADSLPDSTGTQPGETVPPEVLAQQAREAEVQRELDKRAEEAVREMARSGDGPAGGADVAV
RDVVRDMERIKETPASPLTLPDAPEERRRDEAVSQVVRENVQRDRLQQMERETVRDLEREKTLGGD

  Protein domains


Predicted by InterproScan.

DNA helicase TraI (TraI_C)

(1430-1551)

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)

AAA domain (AAA_30)

(967-1152)


  Protein structure



No available structure.




T4CP

ID   12055 GenBank   WP_261659408
Name   traC_N7S94_RS24455_2022CK-00409|unnamed1 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: 98811.48 Da        Isoelectric Point: 5.7676

>WP_261659408.1 MULTISPECIES: type IV secretion system protein TraC [Enterobacteriaceae]
MSNPLDSVTRTVNSLLTALKMPDASSEANDVLGQMRFPQFSRVLPYRDYDAETGLFMNEKTMGFMLEAQP
INGANETIVSSLENLMRTKLPREVPVAVHLVSSHLVGQDIEYGLRELSWTGEKADTFNAITRAYYLRAAE
EGFPLPDHLNLPLTLRNYRVYISCCVPRKRGSKASVMEMENQVKIIRASLQGAQIATRSVDADAFIRIAG
EMINHNPDALYPTERELDPLKDLNYQCVDDTFDLKVKADYMTLGLRGNGRNSTARIMNFQLTKNPELAFL
WNMADNYSNLLNPELSVSCPFILTLVLSVEDQVKAQNEANLKFMDLEKKSKTSYAKFFPGVAQEAKEWGD
LRQRLSSGQSSLVSYFLNVTLFCRDDQETALKVEQDVLNSFRKNGFELISPRFNHMRNFLVNLPFMAGGG
LFKQLRESGVLQRAESFNVANLMPVVADSPLATSGLLAPTYRNQLAFIDLFSRGMGNTNFNMAVCGTSGA
GKTGLIQPLIRSVIDSGGFAVVFDMGDGYKSLCENMGGVYLDGETLKFNPFANVTDDTIDEMAERLRDQL
SVMASPNGNLDEVHEGLLLKAVKATWLTKKNQARIDDVVDYLMMARDSEEYSGSPAIRSRLDEMVVLLTQ
YTRDGVYGSYFNSDEPSLKDEARMVVLELGGLEDRPSLLVAVMFSLILYIENRMYRTPRSLKKLNVIDEG
WRLLDFKNNKVGAFIEKGYRTARRHTGSYITITQNIVDFDSETASSAARAAWGNSSYKIILKQSAKEFAK
YNQLYPDQYSQLQRDMIKGFGSAKDNWFSSFMLSVEHLTSWHRLFVDPLSRAMYSSDGPDFEFLQQRRRE
GLSIHEAVWELAWKKSGPEMAALERWLHEHEGKTIS

  Protein domains


Predicted by InterproScan.

TraG P-loop domain (P-loop_TraG)

(470-765)

Family of unknown function (DUF5934) (DUF5934)

(289-446)

TraC protein (TraC_F_IV)

(38-276)

  Protein structure



No available structure.



ID   12056 GenBank   WP_261659412
Name   traD_N7S94_RS24525_2022CK-00409|unnamed1 insolico UniProt ID   _
Length   728 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 728 a.a.        Molecular weight: 81428.93 Da        Isoelectric Point: 5.1583

>WP_261659412.1 type IV conjugative transfer system coupling protein TraD [Enterobacter cloacae]
MSFNAKDMTQGGQIASMRIRMFSQIANIIVYCLVILFGVIVAITLSVKLTWQTFVNGMVYYWCQTLAPMR
DIFKSQPVYTIRYYGHELKYNAQQIMQDKYIQWCADQVWTAFILAAIIAAVVCVITFFVTTWILGHQGKQ
QSEDEITGGRQLTDDPKAVAKMLRRDGLASDIKIGELPLIKDSEIQNFCLHGTVGAGKSEVIRRLMNYAR
QRGDMVIVYDRSCEFVKSYYDPATDKILNPLDARCAAWDLWRECLTQPDFDNVSNTLIPMGTKEDPFWQG
SGRTIFAEAAYLMRNDKDRSYSKLVDTLLSIKIEKLRSYLKNSPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIENNGESFTIRDWMRGVREDGKNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVIGIQSYAQLEDIYGQKPAETLFDVLNTRAFFRSPSRNIA
EFAAGEIGEKEILKASEQYSYGVDPVRDGTSVGKDMERVTLVSYSDVQTLPDLSCYVTLPGPYPAVKMAL
KYQQRPKVAPEFIPRTIDGKAEERLNAALAAREYESRSIAMLFEPDADVVAPEGGAENAGQPQQPQQPQQ
PQQLAPAPRAADTASASASVAGAAGTGGVGPELKTKAEEAEQLPPGISESGEVVDMAAWEAWQAEQDELS
PQERQRREEVNINVHRAPEKDLEPGGYI

  Protein domains


Predicted by InterproScan.

F sex factor protein N terminal (TraD_N)

(32-128)

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

(172-560)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 48991..73745

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
N7S94_RS24350 (N7S94_24345) 44545..44832 + 288 WP_261659404 hypothetical protein -
N7S94_RS24355 (N7S94_24350) 45459..45833 + 375 WP_008324180 hypothetical protein -
N7S94_RS24360 (N7S94_24355) 45887..46174 + 288 WP_008324178 hypothetical protein -
N7S94_RS24365 (N7S94_24360) 46221..46565 + 345 WP_008324177 hypothetical protein -
N7S94_RS24370 (N7S94_24365) 46651..46914 + 264 WP_008324174 hypothetical protein -
N7S94_RS24375 (N7S94_24370) 46957..47787 + 831 WP_008324171 N-6 DNA methylase -
N7S94_RS24380 (N7S94_24375) 48414..48944 + 531 WP_008324170 antirestriction protein -
N7S94_RS24385 (N7S94_24380) 48991..49467 - 477 WP_008324168 transglycosylase SLT domain-containing protein virB1
N7S94_RS24390 (N7S94_24385) 49899..50291 + 393 WP_008324167 conjugal transfer relaxosome DNA-binding protein TraM -
N7S94_RS24395 (N7S94_24390) 50480..51169 + 690 WP_008324166 hypothetical protein -
N7S94_RS24400 (N7S94_24395) 51256..51480 + 225 WP_008324165 TraY domain-containing protein -
N7S94_RS24405 (N7S94_24400) 51538..51888 + 351 WP_016247536 type IV conjugative transfer system pilin TraA -
N7S94_RS24410 (N7S94_24405) 52039..52344 + 306 WP_008324160 type IV conjugative transfer system protein TraL traL
N7S94_RS24415 (N7S94_24410) 52359..52925 + 567 WP_016247535 type IV conjugative transfer system protein TraE traE
N7S94_RS24420 (N7S94_24415) 52912..53655 + 744 WP_261659405 type-F conjugative transfer system secretin TraK traK
N7S94_RS24425 (N7S94_24420) 53642..55036 + 1395 WP_261659406 F-type conjugal transfer pilus assembly protein TraB traB
N7S94_RS24430 (N7S94_24425) 55058..55597 + 540 WP_261659407 type IV conjugative transfer system lipoprotein TraV traV
N7S94_RS24435 (N7S94_24430) 55717..55941 + 225 WP_016247532 TraR/DksA C4-type zinc finger protein -
N7S94_RS24440 (N7S94_24435) 55945..56130 + 186 WP_008324139 hypothetical protein -
N7S94_RS24445 (N7S94_24440) 56114..56515 + 402 WP_008324137 hypothetical protein -
N7S94_RS24450 (N7S94_24445) 56505..57071 + 567 WP_008324135 conjugal transfer pilus-stabilizing protein TraP -
N7S94_RS24455 (N7S94_24450) 57064..59694 + 2631 WP_261659408 type IV secretion system protein TraC virb4
N7S94_RS24460 (N7S94_24455) 59691..60092 + 402 WP_261659409 type-F conjugative transfer system protein TrbI -
N7S94_RS24465 (N7S94_24460) 60037..60684 + 648 WP_261659410 type-F conjugative transfer system protein TraW traW
N7S94_RS24470 (N7S94_24465) 60687..61673 + 987 WP_032160671 conjugal transfer pilus assembly protein TraU traU
N7S94_RS24475 (N7S94_24470) 61690..62319 + 630 WP_008324130 type-F conjugative transfer system pilin assembly protein TrbC trbC
N7S94_RS24480 (N7S94_24475) 62316..64169 + 1854 WP_016247529 type-F conjugative transfer system mating-pair stabilization protein TraN traN
N7S94_RS24485 (N7S94_24480) 64201..64389 + 189 WP_008324128 conjugal transfer protein TrbE -
N7S94_RS24490 (N7S94_24485) 64420..65169 + 750 WP_008324127 type-F conjugative transfer system pilin assembly protein TraF traF
N7S94_RS24495 (N7S94_24490) 65186..65434 + 249 WP_008324126 type-F conjugative transfer system pilin chaperone TraQ -
N7S94_RS24500 (N7S94_24495) 65424..65969 + 546 WP_261659411 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
N7S94_RS24505 (N7S94_24500) 66008..67342 + 1335 WP_230199841 conjugal transfer pilus assembly protein TraH traH
N7S94_RS24510 (N7S94_24505) 67342..70161 + 2820 WP_032637300 conjugal transfer mating-pair stabilization protein TraG traG
N7S94_RS24515 (N7S94_24510) 70186..70659 + 474 WP_032637302 hypothetical protein -
N7S94_RS24520 (N7S94_24515) 70712..71440 + 729 WP_131797574 hypothetical protein -
N7S94_RS24525 (N7S94_24520) 71559..73745 + 2187 WP_261659412 type IV conjugative transfer system coupling protein TraD virb4

Host bacterium

ID   16551 GenBank   NZ_CP104837
Plasmid name   2022CK-00409|unnamed1 Incompatibility group   IncFII
Plasmid size   84997 bp Coordinate of oriT [Strand]   49539..49641 [+]
Host baterium   Enterobacter cloacae strain 2022CK-00409

Cargo genes

Drug resistance gene   -
Virulence gene   -
Metal resistance gene   mreA, ncrA, chrA
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -