Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   122114
Name   oriT_IncFII(Yp) in_silico
Organism   Enterobacter hormaechei subsp. steigerwaltii strain CNCI 72
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_JAPZBA010000025 (39832..39934 [-], 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_IncFII(Yp)
CTCACCACCAAAAGTTCCACACCCCACGCAAAATTAAAGTTTTGCTGATTGGGTATTCAAATCATGCAGTTAGTGAAAAAGTAATGTGAAATAATTTATTTTA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   13941 GenBank   WP_016479978
Name   traI_O8C69_RS22110_IncFII(Yp) 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   16346 GenBank   WP_058660425
Name   traD_O8C69_RS22115_IncFII(Yp) insolico UniProt ID   _
Length   739 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 739 a.a.        Molecular weight: 82891.50 Da        Isoelectric Point: 5.1609

>WP_058660425.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Enterobacteriaceae]
MSFNAKDMTQGGQIASMRIRMFSQIANIIVYCLVILFGIIVAITLSVKLTWQTFVNGMVYYWCQTLAPMR
DIFKSQPVYTIRYYGHELKYNAQQILQDKYIQWCADQVWTAFILAAIIAAVVCVITFFVTTWILGHQGKQ
QSEDEITGGRQLTDDPKAVAKMLRRDGLASDIKIGELPLIKDSEIQNFCLHGTVGAGKSEVIRRLMNYAR
QRGDMVIVYDRSCEFVKSYYDPATDKILNPLDARCAAWDLWRECLTQPDFDNVSNTLIPMGTKEDPFWQG
SGRTIFAEAAYLMRNDKDRSYSKLVDTLLSIKIEKLRSYLKNSPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIENNGESFTIRDWMRGVREDGKNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WIFADELPTLHKLPDLVEILPEARKFGGCYVIGIQSYAQLEDIYGQKPAETLFDVLNTRAFFRSPSRNIA
EFAAGEIGEKEILKASEQYSYGVDPVRDGTSVGKDMERVTLVSYSDVQTLPDLSCYVTLPGPYPAVKMAL
KYQQRPKVAPEFIPRTIDGKAEERLNAALAAREHESRSIAMLFEPDADVVAPEGGAENAGQPQQPQQPQQ
PQQPQQPQQPQQPQQPQQLTPAPRAADAASVAGAAGAGGVEPELKTKAEEAEQLPPGISESGEVVDMAAW
EAWQAEQDELSPQERQRREEVNINVHRAPEKDLEPGGYI

  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   16347 GenBank   WP_008324134
Name   traC_O8C69_RS22195_IncFII(Yp) 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: 15338..40482

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
O8C69_RS22115 (O8C69_22090) 15338..17557 - 2220 WP_058660425 type IV conjugative transfer system coupling protein TraD virb4
O8C69_RS22120 (O8C69_22095) 17691..18020 - 330 WP_223856629 tetratricopeptide repeat protein -
O8C69_RS22125 (O8C69_22100) 18028..18366 - 339 WP_032072912 tetratricopeptide repeat protein -
O8C69_RS22130 (O8C69_22105) 18441..18872 - 432 WP_008324118 entry exclusion protein -
O8C69_RS22135 (O8C69_22110) 18894..21716 - 2823 WP_008324119 conjugal transfer mating-pair stabilization protein TraG traG
O8C69_RS22140 (O8C69_22115) 21716..23086 - 1371 WP_016247527 conjugal transfer pilus assembly protein TraH traH
O8C69_RS22145 (O8C69_22120) 23073..23501 - 429 WP_008324122 hypothetical protein -
O8C69_RS22150 (O8C69_22125) 23494..24048 - 555 WP_008324125 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
O8C69_RS22155 (O8C69_22130) 24038..24286 - 249 WP_016479982 type-F conjugative transfer system pilin chaperone TraQ -
O8C69_RS22160 (O8C69_22135) 24303..25052 - 750 WP_008324127 type-F conjugative transfer system pilin assembly protein TraF traF
O8C69_RS22165 (O8C69_22140) 25083..25271 - 189 WP_008324128 conjugal transfer protein TrbE -
O8C69_RS22170 (O8C69_22145) 25303..27156 - 1854 WP_016479983 type-F conjugative transfer system mating-pair stabilization protein TraN traN
O8C69_RS22175 (O8C69_22150) 27153..27782 - 630 WP_008324130 type-F conjugative transfer system pilin assembly protein TrbC trbC
O8C69_RS22180 (O8C69_22155) 27799..28785 - 987 WP_042934586 conjugal transfer pilus assembly protein TraU traU
O8C69_RS22185 (O8C69_22160) 28788..29435 - 648 WP_008324132 type-F conjugative transfer system protein TraW traW
O8C69_RS22190 (O8C69_22165) 29435..29782 - 348 WP_008324133 type-F conjugative transfer system protein TrbI -
O8C69_RS22195 (O8C69_22170) 29779..32409 - 2631 WP_008324134 type IV secretion system protein TraC virb4
O8C69_RS22200 (O8C69_22175) 32402..32968 - 567 WP_008324135 conjugal transfer pilus-stabilizing protein TraP -
O8C69_RS22205 (O8C69_22180) 32958..33359 - 402 WP_016479985 hypothetical protein -
O8C69_RS22210 (O8C69_22185) 33343..33528 - 186 WP_008324139 hypothetical protein -
O8C69_RS22215 (O8C69_22190) 33532..33756 - 225 WP_008324141 TraR/DksA C4-type zinc finger protein -
O8C69_RS22220 (O8C69_22195) 33876..34415 - 540 WP_016247533 type IV conjugative transfer system lipoprotein TraV traV
O8C69_RS22225 (O8C69_22200) 34437..35831 - 1395 WP_016479986 F-type conjugal transfer pilus assembly protein TraB traB
O8C69_RS22230 (O8C69_22205) 35818..36561 - 744 WP_008324157 type-F conjugative transfer system secretin TraK traK
O8C69_RS22235 (O8C69_22210) 36548..37114 - 567 WP_016247535 type IV conjugative transfer system protein TraE traE
O8C69_RS22240 (O8C69_22215) 37129..37434 - 306 WP_008324160 type IV conjugative transfer system protein TraL traL
O8C69_RS22245 (O8C69_22220) 37585..37935 - 351 WP_016247536 type IV conjugative transfer system pilin TraA -
O8C69_RS22250 (O8C69_22225) 37993..38217 - 225 WP_008324165 TraY domain-containing protein -
O8C69_RS22255 (O8C69_22230) 38304..38993 - 690 WP_008324166 hypothetical protein -
O8C69_RS22260 (O8C69_22235) 39182..39574 - 393 WP_008324167 conjugal transfer relaxosome DNA-binding protein TraM -
O8C69_RS22265 (O8C69_22240) 40006..40482 + 477 WP_008324168 transglycosylase SLT domain-containing protein virB1
O8C69_RS22270 (O8C69_22245) 40529..41059 - 531 WP_008324170 antirestriction protein -
O8C69_RS22275 (O8C69_22250) 41686..42516 - 831 WP_008324171 N-6 DNA methylase -
O8C69_RS22280 (O8C69_22255) 42559..42822 - 264 WP_008324174 hypothetical protein -
O8C69_RS22285 (O8C69_22260) 42908..43252 - 345 WP_008324177 hypothetical protein -
O8C69_RS22290 (O8C69_22265) 43299..43586 - 288 WP_008324178 hypothetical protein -
O8C69_RS22295 (O8C69_22270) 43640..44014 - 375 WP_008324180 hypothetical protein -
O8C69_RS22300 (O8C69_22275) 44641..45000 - 360 WP_015493069 hypothetical protein -
O8C69_RS22305 (O8C69_22280) 45062..45385 - 324 WP_008324183 hypothetical protein -

Host bacterium

ID   22541 GenBank   NZ_JAPZBA010000025
Plasmid name   IncFII(Yp) Incompatibility group   IncFII
Plasmid size   54883 bp Coordinate of oriT [Strand]   39832..39934 [-]
Host baterium   Enterobacter hormaechei subsp. steigerwaltii strain CNCI 72

Cargo genes

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