Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   113990
Name   oriT_p12949-FIIY in_silico
Organism   Enterobacter cloacae strain 12949
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_MH909344 (64289..64391 [-], 103 nt)
oriT length   103 nt
IRs (inverted repeats)      89..94, 96..101  (AAATAA..TTATTT)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 103 nt

>oriT_p12949-FIIY
CTCACCACCAAAAGCTCCACACCCCACGCAAAATTAAAGTTTTTCTGATTGGGTATTCAAATCATGCAGTTAGTGAAAAAGTAATGTGAAATAATTTATTTTA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   8985 GenBank   WP_172693210
Name   traI_HTU90_RS00160_p12949-FIIY insolico UniProt ID   _
Length   1746 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1746 a.a.        Molecular weight: 189294.44 Da        Isoelectric Point: 6.1115

>WP_172693210.1 conjugative transfer relaxase/helicase TraI [Enterobacter cloacae]
MMSIGSVKSAGSAGNYYTDKDNYYVIGSMGERWAGKGAEALGLSGGVDQKVFTKVLEGRLPDGSDLSRTQ
DGANKHRPGYDFTFSAPKSVSVMAMLGGDKRLIEAHNRAVETAIKQIEAMASTRVMTEGRSETQLTGNLV
MALFNHDTSRDQEPQLHTHAVVANATQHGDEWRTLSSDKVGKTGFIENIYANQIAFGRLYRAALKDDVAA
MGYETETVGKHGMWELKGVPTEPYSSRSRTISEAVGDDASLKSRDVAALDTRQSKQKVDPEQRMAEWMHT
LKETGFDIKAYREAADLRVVQGNIPATTPEAIDINSSVGQAIAMLSDRRARFTYSELLATTLGQLPARSG
MVEMARDGIDAAIKNEQLIPLDKEKGLFTSNIHVLDELSVSAMTRDLQRTGQADIFPDKSVPRSRSYSDA
VSVLAQDRPPVAIISGQGGAAGQRERVAELTMMAREQGRDVQIIAADRRSRSALMQDERLSGEHITDRRG
LTEGMAFTPGSTLIVDQGEKLTLKETLTLLDGALRHNVQLLIADSGQRTGTGSALTVMKEAGVSTLAWQG
GEKTQVSVISEPDRRQRYDRLAADFARSVRAGEHSVAQVTGPREQAVLAGVVREALKAEKVLGEREVSIT
TLEPVWLDSRHQQVRDHYREGMVMERWNAEERSRERFVIDRVTGRNNSLTLRNVQGETRVTRLSELNSSW
SLYRTGTLQVAEGDRLAVLGQAQGTRLRGGDTVTVKALGEAGLVVSLPGRKADVVLPAGDSPFTAAKVVQ
GWVESPGRSVSDSATVFASLSQRELDNTTLNKLALSGRAVRLYSAQTAQKTTEKLSRQSAWSVVSEQIKD
AAGHDRLDDALAHQKAGLHTPEQQAIHLAIPVLEGNGLAFTKPQLMAAAKEFEQDSLSLQAIEKEADRQV
RSGDLLSVPVSPGNGLQLLVSRQSYNAEKSIIRHVLEGKEAVTPLMDKVPDAQLAGLTDGQRNATRMILE
SPDRFTLVQGYAGVGKTTQFRAVMSAIGTLPEREQPRVIGVAPTHRAVSEMRDAGVPETQTLAAFIHDTQ
QQLRGGERTDFSNVLFLVDESSMVGNADMAKAYSLIAGGGGRAVSSGDTDQLQSIAPGQPFRLLQKRSAI
DVAVMQEIVRQTPELKPAVYSLINRDIGSALTTIERVAPAQVPRRADAWQPDSSVMEFSREREEAIAKAV
AAGDLLPGGQPATLLETIVKDYTGRTPEAQAQTIVITALNADRRQVNAMIHDARQDAGEVGEKEVTLPVL
TPANIRDGELRRMTTWEASRDSLVLLDSTYYSIEALDGEAHLVTLKDAQGNTRSLSPAQAATEGVTLYRQ
DTITVSEGDRMRFSKSDNERGFVANSVWSVSEIKGDSVTLSDGKQTRTLTPSAEQAEQHIDLAYAVTVEG
SQGASEPFSISLQGTDGGRKRMVSFESAYVALSRMKQHAQVYTDNRDKWVAAMEKSQAKSTAHDILEPRG
DRAVANAARLTATAKALGEVPAGRAALRQAGLQPEGSMAKFISPGRKYPQPHVALPAFDRNGRQAGVWLS
ALTSGDGQLKGLGGEGRLMGSGDAAFAGLQASRNGESLLARDMEEGVRLARENPQSGVVVRLAGEARPWN
PGAITGGRVWADGLPDSTGTQPAETVPPEVLAQQAREAEVQRELDKRAEEAVREMARSGDGPAGGADVAV
RDVVRDMARIKETPASPLTLPDAPEERRRDEAVSQVVRENVQRDRLQQMERETVRDLEREKTLGGD

  Protein domains


Predicted by InterproScan.

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

(573-625)

AAA domain (AAA_30)

(967-1152)

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

(631-710)

TrwC relaxase (TrwC)

(10-283)

DNA helicase TraI (TraI_C)

(1430-1551)


  Protein structure



No available structure.




T4CP

ID   10420 GenBank   WP_023307203
Name   traD_HTU90_RS00165_p12949-FIIY insolico UniProt ID   _
Length   733 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 733 a.a.        Molecular weight: 82212.80 Da        Isoelectric Point: 5.1609

>WP_023307203.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Enterobacterales]
MSFNAKDMTQGGQIASMRIRMFSQIANIIVYCLVILFGIIVAITLSVKLTWQTFVNGMVYYWCQTLAPMR
DIFKSQPVYTIRYYGHELKYNAQQILQDKYIQWCADQVWTAFILAAIIAAVVCVITFFVTTWILGHQGKQ
QSEDEITGGRQLTDDPKAVAKMLRRDGLASDIKIGELPLIKDSEIQNFCLHGTVGAGKSEVIRRLMNYAR
QRGDMVIVYDRSCEFVKSYYDPATDKILNPLDARCAAWDLWRECLTQPDFDNVSNTLIPMGTKEDPFWQG
SGRTIFAEAAYLMRNDKDRSYSKLVDTLLSIKIEKLRSYLKNSPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIENNGESFTIRDWMRGVREDGKNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVIGIQSYAQLEDIYGQKPAETLFDVLNTRAFFRSPSRNIA
EFAAGEIGEKEILKASEQYSYGVDPVRDGTSVGKDMERVTLVSYSDVQTLPDLSCYVTLPGPYPAVKMAL
KYQQRPKVAPEFIPRTIDGKAEERLNAALAAREHESRSIAMLFEPDADVVAPEGGAENVGQPQQPQQPQQ
PQQPQQPQQPQQLTPAPRAADAASVAGAAGAGGVEPELKTKAEEAEQLPPGISESGEVVDMAAWEAWQAE
QDELSPQERQRREEVNINVHRAPEKDLEPGGYI

  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   10421 GenBank   WP_008324134
Name   traC_HTU90_RS00245_p12949-FIIY 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: 38589..64939

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HTU90_RS00165 38589..40790 - 2202 WP_023307203 type IV conjugative transfer system coupling protein TraD virb4
HTU90_RS00170 40924..41580 - 657 WP_254359158 tetratricopeptide repeat protein -
HTU90_RS00175 41665..42785 + 1121 WP_085950818 IS3-like element ISSen4 family transposase -
HTU90_RS00180 42898..43305 - 408 WP_233406080 entry exclusion protein -
HTU90_RS00185 43351..46173 - 2823 WP_008324119 conjugal transfer mating-pair stabilization protein TraG traG
HTU90_RS00190 46173..47543 - 1371 WP_016247527 conjugal transfer pilus assembly protein TraH traH
HTU90_RS00195 47530..47958 - 429 WP_008324122 hypothetical protein -
HTU90_RS00200 47951..48505 - 555 WP_008324125 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
HTU90_RS00205 48495..48743 - 249 WP_008324126 type-F conjugative transfer system pilin chaperone TraQ -
HTU90_RS00210 48760..49509 - 750 WP_008324127 type-F conjugative transfer system pilin assembly protein TraF traF
HTU90_RS00215 49540..49728 - 189 WP_008324128 conjugal transfer protein TrbE -
HTU90_RS00220 49760..51613 - 1854 WP_022652255 type-F conjugative transfer system mating-pair stabilization protein TraN traN
HTU90_RS00225 51610..52239 - 630 WP_008324130 type-F conjugative transfer system pilin assembly protein TrbC trbC
HTU90_RS00230 52256..53242 - 987 WP_032160671 conjugal transfer pilus assembly protein TraU traU
HTU90_RS00235 53245..53892 - 648 WP_008324132 type-F conjugative transfer system protein TraW traW
HTU90_RS00240 53892..54239 - 348 WP_008324133 type-F conjugative transfer system protein TrbI -
HTU90_RS00245 54236..56866 - 2631 WP_008324134 type IV secretion system protein TraC virb4
HTU90_RS00250 56859..57425 - 567 WP_008324135 conjugal transfer pilus-stabilizing protein TraP -
HTU90_RS00255 57415..57816 - 402 WP_008324137 hypothetical protein -
HTU90_RS00260 57989..58213 - 225 WP_008324141 TraR/DksA C4-type zinc finger protein -
HTU90_RS00265 58333..58872 - 540 WP_008324154 type IV conjugative transfer system lipoprotein TraV traV
HTU90_RS00270 58894..60288 - 1395 WP_008324156 F-type conjugal transfer pilus assembly protein TraB traB
HTU90_RS00275 60275..61018 - 744 WP_008324157 type-F conjugative transfer system secretin TraK traK
HTU90_RS00280 61005..61571 - 567 WP_008324158 type IV conjugative transfer system protein TraE traE
HTU90_RS00285 61586..61891 - 306 WP_008324160 type IV conjugative transfer system protein TraL traL
HTU90_RS00290 62042..62392 - 351 WP_008324162 type IV conjugative transfer system pilin TraA -
HTU90_RS00295 62450..62674 - 225 WP_008324165 TraY domain-containing protein -
HTU90_RS00300 62761..63450 - 690 WP_008324166 hypothetical protein -
HTU90_RS00305 63639..64031 - 393 WP_008324167 conjugal transfer relaxosome DNA-binding protein TraM -
HTU90_RS00310 64463..64939 + 477 WP_008324168 transglycosylase SLT domain-containing protein -
HTU90_RS00315 64986..65516 - 531 WP_008324170 antirestriction protein -
HTU90_RS00320 66143..66973 - 831 WP_022652253 N-6 DNA methylase -
HTU90_RS00325 67016..67279 - 264 WP_008324174 hypothetical protein -
HTU90_RS00330 67365..67709 - 345 WP_022652252 hypothetical protein -
HTU90_RS00335 67756..68043 - 288 WP_008324178 hypothetical protein -
HTU90_RS00340 68097..68471 - 375 WP_008324180 hypothetical protein -
HTU90_RS00345 69192..69458 - 267 WP_022652251 hypothetical protein -
HTU90_RS00350 69520..69843 - 324 WP_008324183 hypothetical protein -

Region 2: 149097..155817

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HTU90_RS00730 144623..144772 + 150 Protein_146 LysR family transcriptional regulator -
HTU90_RS00735 144766..145185 + 420 WP_012579083 fosfomycin resistance glutathione transferase FosA5 -
HTU90_RS00740 146047..147255 + 1209 WP_001339197 IS4-like element ISVsa5 family transposase -
HTU90_RS00850 147268..147609 - 342 Protein_149 restriction endonuclease -
HTU90_RS00750 147665..147976 - 312 WP_001452736 hypothetical protein -
HTU90_RS00755 148012..148326 - 315 WP_001749965 TrbM/KikA/MpfK family conjugal transfer protein -
HTU90_RS00760 148323..148667 - 345 WP_172690806 hypothetical protein -
HTU90_RS00765 148683..149054 - 372 WP_011867773 H-NS family nucleoid-associated regulatory protein -
HTU90_RS00770 149097..149831 + 735 WP_001749963 lytic transglycosylase domain-containing protein virB1
HTU90_RS00775 149840..150121 + 282 WP_000440698 transcriptional repressor KorA -
HTU90_RS00780 150131..150424 + 294 WP_001749962 hypothetical protein virB2
HTU90_RS00785 150459..150791 + 333 WP_228719663 VirB3 family type IV secretion system protein virB3
HTU90_RS00790 150791..153391 + 2601 WP_001749961 VirB4 family type IV secretion/conjugal transfer ATPase virb4
HTU90_RS00795 153409..154122 + 714 WP_001749960 type IV secretion system protein virB5
HTU90_RS00800 154130..154357 + 228 WP_001749959 IncN-type entry exclusion lipoprotein EexN -
HTU90_RS00805 154373..155413 + 1041 WP_001749958 type IV secretion system protein virB6
HTU90_RS00860 155514..155642 + 129 WP_071882546 conjugal transfer protein TraN -
HTU90_RS00810 155632..155817 + 186 WP_254359157 hypothetical protein virB8
HTU90_RS00815 155993..156655 - 663 WP_172693212 hypothetical protein -
HTU90_RS00820 156707..157915 + 1209 WP_001339197 IS4-like element ISVsa5 family transposase -
HTU90_RS00825 157925..159706 - 1782 WP_172693213 DEAD/DEAH box helicase family protein -

Host bacterium

ID   14425 GenBank   NZ_MH909344
Plasmid name   p12949-FIIY Incompatibility group   IncFII
Plasmid size   160312 bp Coordinate of oriT [Strand]   64289..64391 [-]
Host baterium   Enterobacter cloacae strain 12949

Cargo genes

Drug resistance gene   blaIMP-4, fosA5
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -