Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   108486
Name   oriT_pAR0468_2 in_silico
Organism   Enterobacter asburiae strain AR0468-yvys
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP083836 (39668..39770 [-], 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_pAR0468_2
CTCACCACCAAAAGCACCACACCCCACGCAAAATTAAAGTTTTTCTGATTGGGTATTCAAATCATGCAGTTAGTGAAAAAGTAATGTGAAATAATTTATTTTA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   5675 GenBank   WP_032637308
Name   traI_LCD48_RS26120_pAR0468_2 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   6055 GenBank   WP_058654345
Name   traD_LCD48_RS26125_pAR0468_2 insolico UniProt ID   _
Length   743 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 743 a.a.        Molecular weight: 83195.82 Da        Isoelectric Point: 5.1583

>WP_058654345.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Enterobacterales]
MSFNAKDMTQGGQIASMRIRMFSQIANIIVYCLVILFGVIVAITLSVKLTWQTFVNGMVYYWCQTLAPMR
DIFKSQPVYTIRYYGHELKYNAQQIMQDKYIQWCADQVWTAFILAAIIAAVVCVITFFVTTWILGHQGKQ
QSEDEITGGRQLTDDPKAVAKMLRRDGLASDIKIGELPLIKDSEIQNFCLHGTVGAGKSEVIRRLMNYAR
QRGDMVIVYDRSCEFVKSYYDPATDKILNPLDARCAAWDLWRECLTQPDFDNVSNTLIPMGTKEDPFWQG
SGRTIFAEAAYLMRNDKDRSYSKLVDTLLSIKIEKLRSYLKNSPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIENNGESFTIRDWMRGVREDGKNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVIGIQSYAQLEDIYGQKPAETLFDVLNTRAFFRSPSRNIA
EFAAGEIGEKEILKASEQYSYGVDPVRDGTSVGKDMERVTLVSYSDVQTLPDLSCYVTLPGPYPAVKMAL
KYQQRPKVAPEFIPRTIDGKAEERLNAALAAREYESRSIAMLFEPDADVVAPEGGAENAGQPQQPQQPQQ
PQQPQQPQQPQQPQQPQQLAPAPRAADTASASASVAGAAGTGGVGPELKTKAEEAEQLPPGISESGEVVD
MAAWEAWQAEQDELSPQERQRREEVNINVHRAPEKDLEPGGYI

  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.



ID   6056 GenBank   WP_008324134
Name   traC_LCD48_RS26195_pAR0468_2 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: 15518..40318

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
LCD48_RS26125 (LCD48_26135) 15518..17749 - 2232 WP_058654345 type IV conjugative transfer system coupling protein TraD virb4
LCD48_RS26130 (LCD48_26140) 17868..18608 - 741 WP_047363684 hypothetical protein -
LCD48_RS26135 (LCD48_26145) 18649..19122 - 474 WP_032637302 hypothetical protein -
LCD48_RS26140 (LCD48_26150) 19147..21966 - 2820 WP_032637300 conjugal transfer mating-pair stabilization protein TraG traG
LCD48_RS26145 (LCD48_26155) 21966..23342 - 1377 WP_086538482 conjugal transfer pilus assembly protein TraH traH
LCD48_RS26150 (LCD48_26160) 23339..23884 - 546 WP_032637295 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
LCD48_RS26155 (LCD48_26165) 23874..24122 - 249 WP_011901838 type-F conjugative transfer system pilin chaperone TraQ -
LCD48_RS26160 (LCD48_26170) 24139..24888 - 750 WP_032637292 type-F conjugative transfer system pilin assembly protein TraF traF
LCD48_RS26165 (LCD48_26175) 24919..25107 - 189 WP_008324128 conjugal transfer protein TrbE -
LCD48_RS26170 (LCD48_26180) 25139..26992 - 1854 WP_032637290 type-F conjugative transfer system mating-pair stabilization protein TraN traN
LCD48_RS26175 (LCD48_26185) 26989..27618 - 630 WP_032637288 type-F conjugative transfer system pilin assembly protein TrbC trbC
LCD48_RS26180 (LCD48_26190) 27635..28621 - 987 WP_200927139 conjugal transfer pilus assembly protein TraU traU
LCD48_RS26185 (LCD48_26195) 28624..29271 - 648 WP_200927127 type-F conjugative transfer system protein TraW traW
LCD48_RS26190 (LCD48_26200) 29271..29618 - 348 WP_008324133 type-F conjugative transfer system protein TrbI -
LCD48_RS26195 (LCD48_26205) 29615..32245 - 2631 WP_008324134 type IV secretion system protein TraC virb4
LCD48_RS26200 (LCD48_26210) 32238..32804 - 567 WP_008324135 conjugal transfer pilus-stabilizing protein TraP -
LCD48_RS26205 (LCD48_26215) 32794..33195 - 402 WP_008324137 hypothetical protein -
LCD48_RS26210 (LCD48_26220) 33179..33364 - 186 WP_022652254 hypothetical protein -
LCD48_RS26215 (LCD48_26225) 33368..33592 - 225 WP_008324141 TraR/DksA C4-type zinc finger protein -
LCD48_RS26220 (LCD48_26230) 33712..34251 - 540 WP_008324154 type IV conjugative transfer system lipoprotein TraV traV
LCD48_RS26225 (LCD48_26235) 34273..35667 - 1395 WP_008324156 F-type conjugal transfer pilus assembly protein TraB traB
LCD48_RS26230 (LCD48_26240) 35654..36397 - 744 WP_008324157 type-F conjugative transfer system secretin TraK traK
LCD48_RS26235 (LCD48_26245) 36384..36950 - 567 WP_008324158 type IV conjugative transfer system protein TraE traE
LCD48_RS26240 (LCD48_26250) 36965..37270 - 306 WP_008324160 type IV conjugative transfer system protein TraL traL
LCD48_RS26245 (LCD48_26255) 37421..37771 - 351 WP_008324162 type IV conjugative transfer system pilin TraA -
LCD48_RS26250 (LCD48_26260) 37829..38053 - 225 WP_008324165 TraY domain-containing protein -
LCD48_RS26255 (LCD48_26265) 38140..38829 - 690 WP_008324166 hypothetical protein -
LCD48_RS26260 (LCD48_26270) 39018..39410 - 393 WP_008324167 conjugal transfer relaxosome DNA-binding protein TraM -
LCD48_RS26265 (LCD48_26275) 39842..40318 + 477 WP_032637277 transglycosylase SLT domain-containing protein virB1
LCD48_RS26270 (LCD48_26280) 40367..40897 - 531 WP_032637275 antirestriction protein -
LCD48_RS26275 (LCD48_26285) 41524..42354 - 831 WP_032637274 N-6 DNA methylase -
LCD48_RS26280 (LCD48_26290) 42397..42660 - 264 WP_032637261 hypothetical protein -
LCD48_RS26285 (LCD48_26295) 42746..43090 - 345 WP_032637258 hypothetical protein -
LCD48_RS26290 (LCD48_26300) 43137..43427 - 291 WP_230202657 hypothetical protein -
LCD48_RS26295 (LCD48_26305) 43478..43852 - 375 WP_032637252 hypothetical protein -
LCD48_RS26300 (LCD48_26310) 44499..44873 - 375 WP_032637367 hypothetical protein -
LCD48_RS26305 (LCD48_26315) 44935..45258 - 324 WP_057069613 hypothetical protein -

Host bacterium

ID   8921 GenBank   NZ_CP083836
Plasmid name   pAR0468_2 Incompatibility group   IncFII
Plasmid size   54930 bp Coordinate of oriT [Strand]   39668..39770 [-]
Host baterium   Enterobacter asburiae strain AR0468-yvys

Cargo genes

Drug resistance gene   -
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -