Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   104401
Name   oriT_pRHBSTW-00564_2 in_silico
Organism   Enterobacter hormaechei strain RHBSTW-00564
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP056708 (114429..114531 [-], 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_pRHBSTW-00564_2
CTCACCACCAAAAGCTCCACACCCCACGCAAAATTAAAGTTTTGCTGATTGGGTATTCAAATCATGCAGTTAGTGAAAAAGTAATGTGAAATAATTTATTTTA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   3209 GenBank   WP_023307204
Name   traI_HV236_RS22985_pRHBSTW-00564_2 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   3122 GenBank   WP_023307203
Name   traD_HV236_RS22990_pRHBSTW-00564_2 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   3123 GenBank   WP_008324134
Name   traC_HV236_RS23070_pRHBSTW-00564_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: 88729..115079

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HV236_RS22990 (HV236_23000) 88729..90930 - 2202 WP_023307203 type IV conjugative transfer system coupling protein TraD virb4
HV236_RS23000 (HV236_23010) 92322..92963 - 642 WP_181522284 tetratricopeptide repeat protein -
HV236_RS23005 (HV236_23015) 93038..93469 - 432 WP_008324118 entry exclusion protein -
HV236_RS23010 (HV236_23020) 93491..96313 - 2823 WP_008324119 conjugal transfer mating-pair stabilization protein TraG traG
HV236_RS23015 (HV236_23025) 96313..97683 - 1371 WP_008324121 conjugal transfer pilus assembly protein TraH traH
HV236_RS23020 (HV236_23030) 97670..98098 - 429 WP_008324122 hypothetical protein -
HV236_RS23025 (HV236_23035) 98091..98645 - 555 WP_008324125 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
HV236_RS23030 (HV236_23040) 98635..98883 - 249 WP_008324126 type-F conjugative transfer system pilin chaperone TraQ -
HV236_RS23035 (HV236_23045) 98900..99649 - 750 WP_008324127 type-F conjugative transfer system pilin assembly protein TraF traF
HV236_RS23040 (HV236_23050) 99680..99868 - 189 WP_008324128 conjugal transfer protein TrbE -
HV236_RS23045 (HV236_23055) 99900..101753 - 1854 WP_022652255 type-F conjugative transfer system mating-pair stabilization protein TraN traN
HV236_RS23050 (HV236_23060) 101750..102379 - 630 WP_008324130 type-F conjugative transfer system pilin assembly protein TrbC trbC
HV236_RS23055 (HV236_23065) 102396..103382 - 987 WP_032160671 conjugal transfer pilus assembly protein TraU traU
HV236_RS23060 (HV236_23070) 103385..104032 - 648 WP_008324132 type-F conjugative transfer system protein TraW traW
HV236_RS23065 (HV236_23075) 104032..104379 - 348 WP_008324133 type-F conjugative transfer system protein TrbI -
HV236_RS23070 (HV236_23080) 104376..107006 - 2631 WP_008324134 type IV secretion system protein TraC virb4
HV236_RS23075 (HV236_23085) 106999..107565 - 567 WP_008324135 conjugal transfer pilus-stabilizing protein TraP -
HV236_RS23080 (HV236_23090) 107555..107956 - 402 WP_008324137 hypothetical protein -
HV236_RS23085 (HV236_23095) 107940..108125 - 186 WP_008324139 hypothetical protein -
HV236_RS23090 (HV236_23100) 108129..108353 - 225 WP_008324141 TraR/DksA C4-type zinc finger protein -
HV236_RS23095 (HV236_23105) 108473..109012 - 540 WP_181522285 type IV conjugative transfer system lipoprotein TraV traV
HV236_RS23100 (HV236_23110) 109034..110428 - 1395 WP_008324156 F-type conjugal transfer pilus assembly protein TraB traB
HV236_RS23105 (HV236_23115) 110415..111158 - 744 WP_008324157 type-F conjugative transfer system secretin TraK traK
HV236_RS23110 (HV236_23120) 111145..111711 - 567 WP_008324158 type IV conjugative transfer system protein TraE traE
HV236_RS23115 (HV236_23125) 111726..112031 - 306 WP_008324160 type IV conjugative transfer system protein TraL traL
HV236_RS23120 (HV236_23130) 112182..112532 - 351 WP_008324162 type IV conjugative transfer system pilin TraA -
HV236_RS23125 (HV236_23135) 112590..112814 - 225 WP_008324165 TraY domain-containing protein -
HV236_RS23130 (HV236_23140) 112901..113590 - 690 WP_008324166 hypothetical protein -
HV236_RS23135 (HV236_23145) 113779..114171 - 393 WP_008324167 conjugal transfer relaxosome DNA-binding protein TraM -
HV236_RS23140 (HV236_23150) 114603..115079 + 477 WP_008324168 transglycosylase SLT domain-containing protein virB1
HV236_RS23145 (HV236_23155) 115126..115656 - 531 WP_008324170 antirestriction protein -
HV236_RS23150 (HV236_23160) 116283..117113 - 831 WP_008324171 N-6 DNA methylase -
HV236_RS23155 (HV236_23165) 117156..117419 - 264 WP_008324174 hypothetical protein -
HV236_RS23160 (HV236_23170) 117505..117849 - 345 WP_008324177 hypothetical protein -
HV236_RS23165 (HV236_23175) 117896..118183 - 288 WP_008324178 hypothetical protein -
HV236_RS23170 (HV236_23180) 118237..118611 - 375 WP_008324180 hypothetical protein -
HV236_RS23175 (HV236_23185) 119238..119597 - 360 WP_008324181 hypothetical protein -
HV236_RS23180 (HV236_23190) 119659..119982 - 324 WP_008324183 hypothetical protein -

Host bacterium

ID   4840 GenBank   NZ_CP056708
Plasmid name   pRHBSTW-00564_2 Incompatibility group   IncFIB
Plasmid size   140774 bp Coordinate of oriT [Strand]   114429..114531 [-]
Host baterium   Enterobacter hormaechei strain RHBSTW-00564

Cargo genes

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